=============================================================================== About this build: this rebuild has been done as part of reproduce.debian.net where we aim to reproduce Debian binary packages distributed via ftp.debian.org, by rebuilding using the exact same packages as the original build on the buildds, as described in the relevant .buildinfo file from buildinfos.debian.net. For more information please go to https://reproduce.debian.net or join #debian-reproducible on irc.debian.org =============================================================================== Preparing download of sources for /srv/rebuilderd/tmp/rebuilderdfigOhS/inputs/mdtraj_1.11.0-2+b1_i386.buildinfo Source: mdtraj Version: 1.11.0-2 rebuilderd-worker node: infom07-amd64 +------------------------------------------------------------------------------+ | Downloading sources Sun, 14 Dec 2025 08:05:15 +0000 | +------------------------------------------------------------------------------+ Get:1 https://deb.debian.org/debian trixie InRelease [140 kB] Get:2 https://deb.debian.org/debian-security trixie-security InRelease [43.4 kB] Get:3 https://deb.debian.org/debian trixie-updates InRelease [47.3 kB] Get:4 https://deb.debian.org/debian trixie-proposed-updates InRelease [57.5 kB] Get:5 https://deb.debian.org/debian trixie-backports InRelease [54.0 kB] Get:6 https://deb.debian.org/debian forky InRelease [137 kB] Get:7 https://deb.debian.org/debian sid InRelease [176 kB] Get:8 https://deb.debian.org/debian experimental InRelease [82.8 kB] Get:9 https://deb.debian.org/debian trixie/non-free-firmware Sources [6548 B] Get:10 https://deb.debian.org/debian trixie/main Sources [10.5 MB] Get:11 https://deb.debian.org/debian-security trixie-security/main Sources [112 kB] Get:12 https://deb.debian.org/debian-security trixie-security/non-free-firmware Sources [696 B] Get:13 https://deb.debian.org/debian trixie-updates/main Sources [2788 B] Get:14 https://deb.debian.org/debian trixie-proposed-updates/main Sources [63.5 kB] Get:15 https://deb.debian.org/debian trixie-backports/main Sources [109 kB] Get:16 https://deb.debian.org/debian trixie-backports/non-free-firmware Sources [2468 B] Get:17 https://deb.debian.org/debian forky/main Sources [10.6 MB] Get:18 https://deb.debian.org/debian forky/non-free-firmware Sources [7696 B] Get:19 https://deb.debian.org/debian sid/non-free-firmware Sources [9692 B] Get:20 https://deb.debian.org/debian sid/main Sources [11.2 MB] Get:21 https://deb.debian.org/debian experimental/main Sources [355 kB] Get:22 https://deb.debian.org/debian experimental/non-free-firmware Sources [3180 B] Fetched 33.8 MB in 3s (11.5 MB/s) Reading package lists... 'https://deb.debian.org/debian/pool/main/m/mdtraj/mdtraj_1.11.0-2.dsc' mdtraj_1.11.0-2.dsc 2859 SHA256:1ae819aeb9454931ec54f41bdce2467332867d1e4e87960d606c9fb6eddbf96c 'https://deb.debian.org/debian/pool/main/m/mdtraj/mdtraj_1.11.0.orig.tar.gz' mdtraj_1.11.0.orig.tar.gz 22723159 SHA256:fefca787f882d0716a7aeb01b4d8e30caddbd2be0b2893acfa7201c31d13c786 'https://deb.debian.org/debian/pool/main/m/mdtraj/mdtraj_1.11.0-2.debian.tar.xz' mdtraj_1.11.0-2.debian.tar.xz 300368 SHA256:8553fdf5130d41f5881b2c8cc7d509e3b3b2a9c05699998bafdb905550db2a15 fefca787f882d0716a7aeb01b4d8e30caddbd2be0b2893acfa7201c31d13c786 mdtraj_1.11.0.orig.tar.gz 8553fdf5130d41f5881b2c8cc7d509e3b3b2a9c05699998bafdb905550db2a15 mdtraj_1.11.0-2.debian.tar.xz 1ae819aeb9454931ec54f41bdce2467332867d1e4e87960d606c9fb6eddbf96c mdtraj_1.11.0-2.dsc +------------------------------------------------------------------------------+ | Calling debrebuild Sun, 14 Dec 2025 08:05:19 +0000 | +------------------------------------------------------------------------------+ + nice /usr/bin/debrebuild --buildresult=/srv/rebuilderd/tmp/rebuilderdfigOhS/out --builder=sbuild+unshare --cache=/srv/rebuilderd/cache -- /srv/rebuilderd/tmp/rebuilderdfigOhS/inputs/mdtraj_1.11.0-2+b1_i386.buildinfo Rebuilding mdtraj=1.11.0-2 in /srv/rebuilderd/tmp/rebuilderdfigOhS/inputs now. /srv/rebuilderd/tmp/rebuilderdfigOhS/inputs/mdtraj_1.11.0-2+b1_i386.buildinfo contains a GPG signature which has NOT been validated Using defined Build-Path: /build/reproducible-path/mdtraj-1.11.0 I: verifying dsc... successful! Get:1 http://deb.debian.org/debian unstable InRelease [176 kB] Get:2 http://snapshot.debian.org/archive/debian/20251208T083436Z sid InRelease [176 kB] Get:3 http://deb.debian.org/debian unstable/main i386 Packages [9964 kB] Get:4 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 Packages [9987 kB] Fetched 20.3 MB in 2s (11.0 MB/s) Reading package lists... W: http://snapshot.debian.org/archive/debian/20251208T083436Z/dists/sid/InRelease: Loading /etc/apt/trusted.gpg from deprecated option Dir::Etc::Trusted Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libctf0 i386 2.45.50.20251201-1 [96.7 kB] Fetched 96.7 kB in 0s (9160 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpirt2rdk9/libctf0_2.45.50.20251201-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-autocommand all 2.2.2-3 [13.6 kB] Fetched 13.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy2n2ytdl/python3-autocommand_2.2.2-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpgm-5.3-0t64 i386 5.3.128~dfsg-2.1+b1 [169 kB] Fetched 169 kB in 0s (13.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp62kzwwcn/libpgm-5.3-0t64_5.3.128~dfsg-2.1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 file i386 1:5.46-5 [43.5 kB] Fetched 43.5 kB in 0s (3090 kB/s) dpkg-name: info: moved 'file_1%3a5.46-5_i386.deb' to '/srv/rebuilderd/tmp/tmpwwf2g1da/file_5.46-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libsnappy1v5 i386 1.2.2-2 [31.2 kB] Fetched 31.2 kB in 0s (2626 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmy5nf6sm/libsnappy1v5_1.2.2-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Fetched 5667 kB in 0s (139 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0zphfzx3/libjs-mathjax_2.7.9+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 cpp-i686-linux-gnu i386 4:15.2.0-4 [5288 B] Fetched 5288 B in 0s (501 kB/s) dpkg-name: info: moved 'cpp-i686-linux-gnu_4%3a15.2.0-4_i386.deb' to '/srv/rebuilderd/tmp/tmpowsuy12p/cpp-i686-linux-gnu_15.2.0-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libffi8 i386 3.5.2-3 [23.6 kB] Fetched 23.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvvr2n2dg/libffi8_3.5.2-3_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 cpp-15-i686-linux-gnu i386 15.2.0-10 [12.9 MB] Fetched 12.9 MB in 0s (199 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7pcr2zyo/cpp-15-i686-linux-gnu_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.46-5 [338 kB] Fetched 338 kB in 0s (23.2 MB/s) dpkg-name: info: moved 'libmagic-mgc_1%3a5.46-5_i386.deb' to '/srv/rebuilderd/tmp/tmp0f3dvfsj/libmagic-mgc_5.46-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libsmartcols1 i386 2.41.2-4 [154 kB] Fetched 154 kB in 0s (13.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsc4_qcuw/libsmartcols1_2.41.2-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libhogweed6t64 i386 3.10.2-1 [339 kB] Fetched 339 kB in 0s (26.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfnvhz56v/libhogweed6t64_3.10.2-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-tornado i386 6.5.2-3 [356 kB] Fetched 356 kB in 0s (23.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf5rs26wg/python3-tornado_6.5.2-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libzstd1 i386 1.5.7+dfsg-2 [308 kB] Fetched 308 kB in 0s (23.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2cm8ou_u/libzstd1_1.5.7+dfsg-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libxxhash0 i386 0.8.3-2 [39.4 kB] Fetched 39.4 kB in 0s (3292 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpluzdmymf/libxxhash0_0.8.3-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-certifi all 2025.11.12+ds-1 [10.0 kB] Fetched 10.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwzbnwmb6/python3-certifi_2025.11.12+ds-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libgdbm6t64 i386 1.26-1 [83.9 kB] Fetched 83.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4o1xpddw/libgdbm6t64_1.26-1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 cpp-15 i386 15.2.0-10 [1276 B] Fetched 1276 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvb93j5ru/cpp-15_15.2.0-10_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libgfortran5 i386 15.2.0-10 [729 kB] Fetched 729 kB in 0s (49.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnh_6bzza/libgfortran5_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libcap-ng0 i386 0.8.5-4+b2 [17.8 kB] Fetched 17.8 kB in 0s (1776 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbxj75enh/libcap-ng0_0.8.5-4+b2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-referencing all 0.36.2-2 [23.8 kB] Fetched 23.8 kB in 0s (2009 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyv9cf0x5/python3-referencing_0.36.2-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 g++-15-i686-linux-gnu i386 15.2.0-10 [14.0 MB] Fetched 14.0 MB in 0s (200 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5xu4tshc/g++-15-i686-linux-gnu_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-charset-normalizer i386 3.4.4-2 [166 kB] Fetched 166 kB in 0s (11.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0q_dzz6m/python3-charset-normalizer_3.4.4-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3.14 i386 3.14.2-1+b1 [2334 kB] Fetched 2334 kB in 0s (108 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaqa9nrnw/libpython3.14_3.14.2-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jsonschema all 4.25.1-2 [75.7 kB] Fetched 75.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcaf0yjb9/python3-jsonschema_4.25.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libreadline8t64 i386 8.3-3 [185 kB] Fetched 185 kB in 0s (16.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu0d7luf0/libreadline8t64_8.3-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libsqlite3-0 i386 3.46.1-8 [992 kB] Fetched 992 kB in 0s (66.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmhc2tst2/libsqlite3-0_3.46.1-8_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 pybuild-plugin-pyproject all 6.20251204.1 [12.3 kB] Fetched 12.3 kB in 0s (1184 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj9qsa4ec/pybuild-plugin-pyproject_6.20251204.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libnettle8t64 i386 3.10.2-1 [318 kB] Fetched 318 kB in 0s (25.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3d_pvk84/libnettle8t64_3.10.2-1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libsframe2 i386 2.45.50.20251201-1 [80.4 kB] Fetched 80.4 kB in 0s (7423 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpufqmmxti/libsframe2_2.45.50.20251201-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libsodium23 i386 1.0.18-1+b2 [186 kB] Fetched 186 kB in 0s (14.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0o1_wntz/libsodium23_1.0.18-1+b2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-nbsphinx all 0.9.5+ds-1 [39.9 kB] Fetched 39.9 kB in 0s (3333 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi1tqr0rs/python3-nbsphinx_0.9.5+ds-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Fetched 22.9 kB in 0s (2003 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjonu22ua/intltool-debian_0.35.0+20060710.6_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libquadmath0 i386 15.2.0-10 [230 kB] Fetched 230 kB in 0s (17.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8k3rg8nn/libquadmath0_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libgdbm-compat4t64 i386 1.26-1 [53.3 kB] Fetched 53.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnnkqsi3e/libgdbm-compat4t64_1.26-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 openssl i386 3.5.4-1 [1501 kB] Fetched 1501 kB in 0s (88.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppk7csfuk/openssl_3.5.4-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libjansson4 i386 2.14-2+b3 [41.6 kB] Fetched 41.6 kB in 0s (3517 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr3m_a45_/libjansson4_2.14-2+b3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-2 [41.7 kB] Fetched 41.7 kB in 0s (3596 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0u8il3os/libpipeline1_1.5.8-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-dev i386 3.13.9-2 [26.0 kB] Fetched 26.0 kB in 0s (2331 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdkm7vt6b/python3-dev_3.13.9-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pandas-lib i386 2.3.3+dfsg-3 [5884 kB] Fetched 5884 kB in 0s (130 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw8563ox7/python3-pandas-lib_2.3.3+dfsg-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-cftime i386 1.6.5-1+b1 [479 kB] Fetched 479 kB in 0s (36.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3w7p4vus/python3-cftime_1.6.5-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 xz-utils i386 5.8.1-2 [664 kB] Fetched 664 kB in 0s (48.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpafffhle5/xz-utils_5.8.1-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-10 [1207 kB] Fetched 1207 kB in 0s (77.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp76a8_tu5/groff-base_1.23.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-platformdirs all 4.4.0-1 [16.7 kB] Fetched 16.7 kB in 0s (1426 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpey10rdhs/python3-platformdirs_4.4.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3.13-minimal i386 3.13.11-1+b1 [2295 kB] Fetched 2295 kB in 0s (105 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp282zdmo3/python3.13-minimal_3.13.11-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-versioneer all 0.29-1 [43.0 kB] Fetched 43.0 kB in 0s (4260 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprmapmzow/python3-versioneer_0.29-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-rpds-py i386 0.28.0-1 [372 kB] Fetched 372 kB in 0s (25.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6jf_0fm5/python3-rpds-py_0.28.0-1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 tzdata all 2025b-5 [260 kB] Fetched 260 kB in 0s (20.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppue12j49/tzdata_2025b-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-attr all 25.4.0-1 [73.1 kB] Fetched 73.1 kB in 0s (6335 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph_nagzh9/python3-attr_25.4.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 g++-15 i386 15.2.0-10 [24.8 kB] Fetched 24.8 kB in 0s (2225 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfwm0wo9y/g++-15_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jaraco.context all 6.0.1-1 [8276 B] Fetched 8276 B in 0s (667 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9cb3cjwa/python3-jaraco.context_6.0.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libngtcp2-crypto-gnutls8 i386 1.16.0-1 [25.6 kB] Fetched 25.6 kB in 0s (2550 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpie3s564u/libngtcp2-crypto-gnutls8_1.16.0-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-nbconvert all 7.16.6-1 [160 kB] Fetched 160 kB in 0s (12.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm3i0ansd/python3-nbconvert_7.16.6-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-tables-lib i386 3.10.2-3+b1 [662 kB] Fetched 662 kB in 0s (8123 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1e3lm3jq/python3-tables-lib_3.10.2-3+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-numpy i386 1:2.3.5+ds-2+b1 [7362 kB] Fetched 7362 kB in 0s (167 MB/s) dpkg-name: info: moved 'python3-numpy_1%3a2.3.5+ds-2+b1_i386.deb' to '/srv/rebuilderd/tmp/tmpjkesracg/python3-numpy_2.3.5+ds-2+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jinja2 all 3.1.6-1 [107 kB] Fetched 107 kB in 0s (8453 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppmo22mym/python3-jinja2_3.1.6-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 sphinx-common all 8.2.3-11 [619 kB] Fetched 619 kB in 0s (34.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxzfnke4b/sphinx-common_8.2.3-11_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-soupsieve all 2.7-2 [39.0 kB] Fetched 39.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5caiy68z/python3-soupsieve_2.7-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jupyter-core all 5.7.2-5 [35.3 kB] Fetched 35.3 kB in 0s (519 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo_cmqrxn/python3-jupyter-core_5.7.2-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-zmq i386 27.1.0-1+b1 [209 kB] Fetched 209 kB in 0s (15.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2rqjque5/python3-zmq_27.1.0-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libisl23 i386 0.27-1 [747 kB] Fetched 747 kB in 0s (60.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3jr34gn5/libisl23_0.27-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 liblzo2-2 i386 2.10-3+b1 [59.5 kB] Fetched 59.5 kB in 0s (5643 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5qkebych/liblzo2-2_2.10-3+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-iniconfig all 2.1.0-1 [7432 B] Fetched 7432 B in 0s (582 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv68e6vpo/python3-iniconfig_2.1.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 autopoint all 0.23.2-1 [772 kB] Fetched 772 kB in 0s (56.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjgw7nwwe/autopoint_0.23.2-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libdebhelper-perl all 13.28 [92.4 kB] Fetched 92.4 kB in 0s (8428 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa1kia4ge/libdebhelper-perl_13.28_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libsasl2-2 i386 2.1.28+dfsg1-10 [61.4 kB] Fetched 61.4 kB in 0s (4608 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyqs_b_1h/libsasl2-2_2.1.28+dfsg1-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-imagesize all 1.4.1-1 [6688 B] Fetched 6688 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm2krp68m/python3-imagesize_1.4.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libsz2 i386 1.1.4-2 [8140 B] Fetched 8140 B in 0s (737 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl4bip_3t/libsz2_1.1.4-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-tables all 3.10.2-3 [354 kB] Fetched 354 kB in 0s (843 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoa_82fhs/python3-tables_3.10.2-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-wheel all 0.46.1-2 [21.7 kB] Fetched 21.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpij5f57ce/python3-wheel_0.46.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-numexpr i386 2.14.1-1+b1 [145 kB] Fetched 145 kB in 0s (12.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0k83ynpc/python3-numexpr_2.14.1-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3.14-stdlib i386 3.14.2-1+b1 [2271 kB] Fetched 2271 kB in 0s (97.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkxfwnqza/libpython3.14-stdlib_3.14.2-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libexpat1-dev i386 2.7.3-1 [173 kB] Fetched 173 kB in 0s (14.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5kntale2/libexpat1-dev_2.7.3-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-3 [61.9 kB] Fetched 61.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpirtcwof0/librtmp1_2.4+20151223.gitfa8646d.1-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pluggy all 1.6.0-1 [27.1 kB] Fetched 27.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbsvqna3h/python3-pluggy_1.6.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 gcc-i686-linux-gnu i386 4:15.2.0-4 [1428 B] Fetched 1428 B in 0s (128 kB/s) dpkg-name: info: moved 'gcc-i686-linux-gnu_4%3a15.2.0-4_i386.deb' to '/srv/rebuilderd/tmp/tmp7o6vgxsz/gcc-i686-linux-gnu_15.2.0-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 init-system-helpers all 1.69 [39.3 kB] Fetched 39.3 kB in 0s (3124 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx8vmxift/init-system-helpers_1.69_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libcrypt-dev i386 1:4.5.1-1 [136 kB] Fetched 136 kB in 0s (10.3 MB/s) dpkg-name: info: moved 'libcrypt-dev_1%3a4.5.1-1_i386.deb' to '/srv/rebuilderd/tmp/tmpsr4lqo1c/libcrypt-dev_4.5.1-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Fetched 8812 B in 0s (872 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2tt016_e/dh-strip-nondeterminism_1.15.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libc6-dev i386 2.42-5 [1832 kB] Fetched 1832 kB in 0s (120 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfssfkut6/libc6-dev_2.42-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libexpat1 i386 2.7.3-1 [115 kB] Fetched 115 kB in 0s (9506 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_jbj_71q/libexpat1_2.7.3-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3-stdlib i386 3.13.9-2 [10.5 kB] Fetched 10.5 kB in 0s (945 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbcuvtvdn/libpython3-stdlib_3.13.9-2_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libgcc-s1 i386 15.2.0-10 [87.0 kB] Fetched 87.0 kB in 0s (7671 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc_uhow3q/libgcc-s1_15.2.0-10_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libasan8 i386 15.2.0-10 [2649 kB] Fetched 2649 kB in 0s (124 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkx5mhrhv/libasan8_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB] Fetched 916 kB in 0s (8985 kB/s) dpkg-name: info: moved 'zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_i386.deb' to '/srv/rebuilderd/tmp/tmp3q8jwbd0/zlib1g-dev_1.3.dfsg+really1.3.1-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-inflect all 7.5.0-1 [33.0 kB] Fetched 33.0 kB in 0s (451 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8a0jqxoo/python3-inflect_7.5.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 coreutils i386 9.7-3 [3093 kB] Fetched 3093 kB in 0s (129 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprqxrj68b/coreutils_9.7-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3.13 i386 3.13.11-1+b1 [2223 kB] Fetched 2223 kB in 0s (87.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpses2vn1f/libpython3.13_3.13.11-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3.13-minimal i386 3.13.11-1+b1 [866 kB] Fetched 866 kB in 0s (66.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6e8m58ox/libpython3.13-minimal_3.13.11-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-nbformat all 5.9.1-1 [45.1 kB] Fetched 45.1 kB in 0s (3610 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg0kf9q7w/python3-nbformat_5.9.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-babel all 2.17.0-2 [117 kB] Fetched 117 kB in 0s (10.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeoijz4ca/python3-babel_2.17.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.1-1 [1478 kB] Fetched 1478 kB in 0s (90.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4qp_r5t7/man-db_2.13.1-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libhdf5-310 i386 1.14.5+repack-4 [1333 kB] Fetched 1333 kB in 0s (88.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2pzhz5cr/libhdf5-310_1.14.5+repack-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpam-modules-bin i386 1.7.0-5 [51.3 kB] Fetched 51.3 kB in 0s (4130 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbnkwp1z2/libpam-modules-bin_1.7.0-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-snowballstemmer all 3.0.1-1 [63.5 kB] Fetched 63.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk2yc02v9/python3-snowballstemmer_3.0.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libp11-kit0 i386 0.25.10-1 [434 kB] Fetched 434 kB in 0s (43.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2f1qg__7/libp11-kit0_0.25.10-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-build all 1.2.2-4 [36.2 kB] Fetched 36.2 kB in 0s (3253 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyvv_do9y/python3-build_1.2.2-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 perl-base i386 5.40.1-7 [1773 kB] Fetched 1773 kB in 0s (98.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4xu75xrg/perl-base_5.40.1-7_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3.14 i386 3.14.2-1+b1 [829 kB] Fetched 829 kB in 0s (47.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_jirnf3j/python3.14_3.14.2-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-cpuinfo all 9.0.0+git20221119-3 [23.5 kB] Fetched 23.5 kB in 0s (1470 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnfjuiue8/python3-cpuinfo_9.0.0+git20221119-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libatomic1 i386 15.2.0-10 [7752 B] Fetched 7752 B in 0s (683 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp425dw6fk/libatomic1_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jupyter-client all 8.6.3-3 [92.4 kB] Fetched 92.4 kB in 0s (7874 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp83qyxu66/python3-jupyter-client_8.6.3-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pytz all 2025.2-5 [31.8 kB] Fetched 31.8 kB in 0s (3097 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsxnwl7v8/python3-pytz_2025.2-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libngtcp2-16 i386 1.16.0-1 [168 kB] Fetched 168 kB in 0s (15.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8da6nsun/libngtcp2-16_1.16.0-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libblkid1 i386 2.41.2-4 [189 kB] Fetched 189 kB in 0s (17.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr2mjfk2z/libblkid1_2.41.2-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libcurl4t64 i386 8.17.0-3 [455 kB] Fetched 455 kB in 0s (27.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd9x48zm2/libcurl4t64_8.17.0-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 readline-common all 8.3-3 [74.8 kB] Fetched 74.8 kB in 0s (6704 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1ui2gq04/readline-common_8.3-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-bleach all 6.3.0-1 [51.4 kB] Fetched 51.4 kB in 0s (4955 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphsxqo_uh/python3-bleach_6.3.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libdpkg-perl all 1.22.21 [650 kB] Fetched 650 kB in 0s (42.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp172raip5/libdpkg-perl_1.22.21_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 g++-i686-linux-gnu i386 4:15.2.0-4 [1192 B] Fetched 1192 B in 0s (111 kB/s) dpkg-name: info: moved 'g++-i686-linux-gnu_4%3a15.2.0-4_i386.deb' to '/srv/rebuilderd/tmp/tmpg7dqg2g0/g++-i686-linux-gnu_15.2.0-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-all i386 3.13.9-2 [1052 B] Fetched 1052 B in 0s (96.8 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5dydikvb/python3-all_3.13.9-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pytest all 8.4.2-1 [266 kB] Fetched 266 kB in 0s (23.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2t23_lpt/python3-pytest_8.4.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-nbclient all 0.8.0-3 [62.3 kB] Fetched 62.3 kB in 0s (5816 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0v5635ea/python3-nbclient_0.8.0-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libgmp10 i386 2:6.3.0+dfsg-5 [572 kB] Fetched 572 kB in 0s (45.8 MB/s) dpkg-name: info: moved 'libgmp10_2%3a6.3.0+dfsg-5_i386.deb' to '/srv/rebuilderd/tmp/tmptm1s6f7t/libgmp10_6.3.0+dfsg-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pandocfilters all 1.5.1-1 [23.7 kB] Fetched 23.7 kB in 0s (2154 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsmcuofgt/python3-pandocfilters_1.5.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 gcc i386 4:15.2.0-4 [5152 B] Fetched 5152 B in 0s (470 kB/s) dpkg-name: info: moved 'gcc_4%3a15.2.0-4_i386.deb' to '/srv/rebuilderd/tmp/tmpt73ked29/gcc_15.2.0-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libmpfr6 i386 4.2.2-2 [757 kB] Fetched 757 kB in 0s (49.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8aaya21k/libmpfr6_4.2.2-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Fetched 2210 kB in 0s (9284 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptp6ow0ct/fonts-mathjax_2.7.9+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Fetched 12.0 kB in 0s (1117 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxk5zy0ku/python3-jaraco.functools_4.1.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libssh2-1t64 i386 1.11.1-1 [256 kB] Fetched 256 kB in 0s (25.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr49exv7d/libssh2-1t64_1.11.1-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 base-passwd i386 3.6.8 [55.1 kB] Fetched 55.1 kB in 0s (4967 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8fc8ljpy/base-passwd_3.6.8_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 debhelper all 13.28 [941 kB] Fetched 941 kB in 0s (66.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2i4865k8/debhelper_13.28_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.41.2-4 [103 kB] Fetched 103 kB in 0s (7662 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphr4kxw1j/bsdextrautils_2.41.2-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3.13-stdlib i386 3.13.11-1+b1 [1974 kB] Fetched 1974 kB in 0s (96.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt647mqpt/libpython3.13-stdlib_3.13.11-1+b1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libc-gconv-modules-extra i386 2.42-5 [1122 kB] Fetched 1122 kB in 0s (74.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5sl990bm/libc-gconv-modules-extra_2.42-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pandas all 2.3.3+dfsg-3 [2935 kB] Fetched 2935 kB in 0s (108 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8417ul08/python3-pandas_2.3.3+dfsg-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-roman-numerals all 3.1.0-2 [8740 B] Fetched 8740 B in 0s (815 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpst8q7ir0/python3-roman-numerals_3.1.0-2_all.deb' Downloading dependency 1 of 315: libctf0:i386=2.45.50.20251201-1 Downloading dependency 2 of 315: python3-autocommand:i386=2.2.2-3 Downloading dependency 3 of 315: libpgm-5.3-0t64:i386=5.3.128~dfsg-2.1+b1 Downloading dependency 4 of 315: file:i386=1:5.46-5 Downloading dependency 5 of 315: libsnappy1v5:i386=1.2.2-2 Downloading dependency 6 of 315: libjs-mathjax:i386=2.7.9+dfsg-1 Downloading dependency 7 of 315: cpp-i686-linux-gnu:i386=4:15.2.0-4 Downloading dependency 8 of 315: libffi8:i386=3.5.2-3 Downloading dependency 9 of 315: cpp-15-i686-linux-gnu:i386=15.2.0-10 Downloading dependency 10 of 315: libmagic-mgc:i386=1:5.46-5 Downloading dependency 11 of 315: libsmartcols1:i386=2.41.2-4 Downloading dependency 12 of 315: libhogweed6t64:i386=3.10.2-1 Downloading dependency 13 of 315: python3-tornado:i386=6.5.2-3 Downloading dependency 14 of 315: libzstd1:i386=1.5.7+dfsg-2 Downloading dependency 15 of 315: libxxhash0:i386=0.8.3-2 Downloading dependency 16 of 315: python3-certifi:i386=2025.11.12+ds-1 Downloading dependency 17 of 315: libgdbm6t64:i386=1.26-1 Downloading dependency 18 of 315: cpp-15:i386=15.2.0-10 Downloading dependency 19 of 315: libgfortran5:i386=15.2.0-10 Downloading dependency 20 of 315: libcap-ng0:i386=0.8.5-4+b2 Downloading dependency 21 of 315: python3-referencing:i386=0.36.2-2 Downloading dependency 22 of 315: g++-15-i686-linux-gnu:i386=15.2.0-10 Downloading dependency 23 of 315: python3-charset-normalizer:i386=3.4.4-2 Downloading dependency 24 of 315: libpython3.14:i386=3.14.2-1+b1 Downloading dependency 25 of 315: python3-jsonschema:i386=4.25.1-2 Downloading dependency 26 of 315: libreadline8t64:i386=8.3-3 Downloading dependency 27 of 315: libsqlite3-0:i386=3.46.1-8 Downloading dependency 28 of 315: pybuild-plugin-pyproject:i386=6.20251204.1 Downloading dependency 29 of 315: libnettle8t64:i386=3.10.2-1 Downloading dependency 30 of 315: libsframe2:i386=2.45.50.20251201-1 Downloading dependency 31 of 315: libsodium23:i386=1.0.18-1+b2 Downloading dependency 32 of 315: python3-nbsphinx:i386=0.9.5+ds-1 Downloading dependency 33 of 315: intltool-debian:i386=0.35.0+20060710.6 Downloading dependency 34 of 315: libquadmath0:i386=15.2.0-10 Downloading dependency 35 of 315: libgdbm-compat4t64:i386=1.26-1 Downloading dependency 36 of 315: openssl:i386=3.5.4-1 Downloading dependency 37 of 315: libjansson4:i386=2.14-2+b3 Downloading dependency 38 of 315: libpipeline1:i386=1.5.8-2 Downloading dependency 39 of 315: python3-dev:i386=3.13.9-2 Downloading dependency 40 of 315: python3-pandas-lib:i386=2.3.3+dfsg-3 Downloading dependency 41 of 315: python3-cftime:i386=1.6.5-1+b1 Downloading dependency 42 of 315: xz-utils:i386=5.8.1-2 Downloading dependency 43 of 315: groff-base:i386=1.23.0-10 Downloading dependency 44 of 315: python3-platformdirs:i386=4.4.0-1 Downloading dependency 45 of 315: python3.13-minimal:i386=3.13.11-1+b1 Downloading dependency 46 of 315: python3-versioneer:i386=0.29-1 Downloading dependency 47 of 315: python3-rpds-py:i386=0.28.0-1 Downloading dependency 48 of 315: tzdata:i386=2025b-5 Downloading dependency 49 of 315: python3-attr:i386=25.4.0-1 Downloading dependency 50 of 315: g++-15:i386=15.2.0-10 Downloading dependency 51 of 315: python3-jaraco.context:i386=6.0.1-1 Downloading dependency 52 of 315: libngtcp2-crypto-gnutls8:i386=1.16.0-1 Downloading dependency 53 of 315: python3-nbconvert:i386=7.16.6-1 Downloading dependency 54 of 315: python3-tables-lib:i386=3.10.2-3+b1 Downloading dependency 55 of 315: python3-numpy:i386=1:2.3.5+ds-2+b1 Downloading dependency 56 of 315: python3-jinja2:i386=3.1.6-1 Downloading dependency 57 of 315: sphinx-common:i386=8.2.3-11 Downloading dependency 58 of 315: python3-soupsieve:i386=2.7-2 Downloading dependency 59 of 315: python3-jupyter-core:i386=5.7.2-5 Downloading dependency 60 of 315: python3-zmq:i386=27.1.0-1+b1 Downloading dependency 61 of 315: libisl23:i386=0.27-1 Downloading dependency 62 of 315: liblzo2-2:i386=2.10-3+b1 Downloading dependency 63 of 315: python3-iniconfig:i386=2.1.0-1 Downloading dependency 64 of 315: autopoint:i386=0.23.2-1 Downloading dependency 65 of 315: libdebhelper-perl:i386=13.28 Downloading dependency 66 of 315: libsasl2-2:i386=2.1.28+dfsg1-10 Downloading dependency 67 of 315: python3-imagesize:i386=1.4.1-1 Downloading dependency 68 of 315: libsz2:i386=1.1.4-2 Downloading dependency 69 of 315: python3-tables:i386=3.10.2-3 Downloading dependency 70 of 315: python3-wheel:i386=0.46.1-2 Downloading dependency 71 of 315: python3-numexpr:i386=2.14.1-1+b1 Downloading dependency 72 of 315: libpython3.14-stdlib:i386=3.14.2-1+b1 Downloading dependency 73 of 315: libexpat1-dev:i386=2.7.3-1 Downloading dependency 74 of 315: librtmp1:i386=2.4+20151223.gitfa8646d.1-3 Downloading dependency 75 of 315: python3-pluggy:i386=1.6.0-1 Downloading dependency 76 of 315: gcc-i686-linux-gnu:i386=4:15.2.0-4 Downloading dependency 77 of 315: init-system-helpers:i386=1.69 Downloading dependency 78 of 315: libcrypt-dev:i386=1:4.5.1-1 Downloading dependency 79 of 315: dh-strip-nondeterminism:i386=1.15.0-1 Downloading dependency 80 of 315: libc6-dev:i386=2.42-5 Downloading dependency 81 of 315: libexpat1:i386=2.7.3-1 Downloading dependency 82 of 315: libpython3-stdlib:i386=3.13.9-2 Downloading dependency 83 of 315: libgcc-s1:i386=15.2.0-10 Downloading dependency 84 of 315: libasan8:i386=15.2.0-10 Downloading dependency 85 of 315: 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python3-cpuinfo:i386=9.0.0+git20221119-3 Downloading dependency 101 of 315: libatomic1:i386=15.2.0-10 Downloading dependency 102 of 315: python3-jupyter-client:i386=8.6.3-3 Downloading dependency 103 of 315: python3-pytz:i386=2025.2-5 Downloading dependency 104 of 315: libngtcp2-16:i386=1.16.0-1 Downloading dependency 105 of 315: libblkid1:i386=2.41.2-4 Downloading dependency 106 of 315: libcurl4t64:i386=8.17.0-3 Downloading dependency 107 of 315: readline-common:i386=8.3-3 Downloading dependency 108 of 315: python3-bleach:i386=6.3.0-1 Downloading dependency 109 of 315: libdpkg-perl:i386=1.22.21 Downloading dependency 110 of 315: g++-i686-linux-gnu:i386=4:15.2.0-4 Downloading dependency 111 of 315: python3-all:i386=3.13.9-2 Downloading dependency 112 of 315: python3-pytest:i386=8.4.2-1 Downloading dependency 113 of 315: python3-nbclient:i386=0.8.0-3 Downloading dependency 114 of 315: libgmp10:i386=2:6.3.0+dfsg-5 Downloading dependency 115 of 315: python3-pandocfilters:i386=1.5.1-1 Downloading dependency 116 of 315: gcc:i386=4:15.2.0-4 Downloading dependency 117 of 315: libmpfr6:i386=4.2.2-2 Downloading dependency 118 of 315: fonts-mathjax:i386=2.7.9+dfsg-1 Downloading dependency 119 of 315: python3-jaraco.functools:i386=4.1.0-1 Downloading dependency 120 of 315: libssh2-1t64:i386=1.11.1-1 Downloading dependency 121 of 315: base-passwd:i386=3.6.8 Downloading dependency 122 of 315: debhelper:i386=13.28 Downloading dependency 123 of 315: bsdextrautils:i386=2.41.2-4 Downloading dependency 124 of 315: libpython3.13-stdlib:i386=3.13.11-1+b1 Downloading dependency 125 of 315: libc-gconv-modules-extra:i386=2.42-5 Downloading dependency 126 of 315: python3-pandas:i386=2.3.3+dfsg-3 Downloading dependency 127 of 315: python3-roman-numerals:i386=3.1.0-2 Downloading dependency 128 of 315: python3-markupsafe:i386=3.0.3-1+b1Get:1 http://deb.debian.org/debian unstable/main i386 python3-markupsafe i386 3.0.3-1+b1 [14.3 kB] Fetched 14.3 kB in 0s (1356 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpos7cbrqh/python3-markupsafe_3.0.3-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 sysvinit-utils i386 3.15-6 [35.6 kB] Fetched 35.6 kB in 0s (3131 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp04wnysl6/sysvinit-utils_3.15-6_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libudev1 i386 259~rc2-1 [161 kB] Fetched 161 kB in 0s (13.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjsq1627d/libudev1_259~rc2-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.194-1 [192 kB] Fetched 192 kB in 0s (17.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbjw6eekv/libelf1t64_0.194-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-html5lib all 1.2-2 [92.1 kB] Fetched 92.1 kB in 0s (9154 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr6u4r7mp/python3-html5lib_1.2-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-mistune all 3.1.4-1 [35.7 kB] Fetched 35.7 kB in 0s (3251 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm_qo4x9z/python3-mistune_3.1.4-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 bzip2 i386 1.0.8-6 [40.7 kB] Fetched 40.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp1wsnhyw/bzip2_1.0.8-6_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libstdc++-15-dev i386 15.2.0-10 [2508 kB] Fetched 2508 kB in 0s (120 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_lcwn_k4/libstdc++-15-dev_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3.14-dev i386 3.14.2-1+b1 [508 kB] Fetched 508 kB in 0s (40.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2as8l7s6/python3.14-dev_3.14.2-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python-tinycss2-common all 1.4.0-2 [44.7 kB] Fetched 44.7 kB in 0s (3782 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp0e9c5w8/python-tinycss2-common_1.4.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-chardet all 5.2.0+dfsg-2 [108 kB] Fetched 108 kB in 0s (8899 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfw7soia5/python3-chardet_5.2.0+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 tar i386 1.35+dfsg-3.1 [838 kB] Fetched 838 kB in 0s (55.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnu7q5bab/tar_1.35+dfsg-3.1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libitm1 i386 15.2.0-10 [28.0 kB] Fetched 28.0 kB in 0s (2603 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph68tv6s9/libitm1_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python-tables-data all 3.10.2-3 [47.3 kB] Fetched 47.3 kB in 0s (4193 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp95qa4xjz/python-tables-data_3.10.2-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libaudit-common all 1:4.1.2-1 [14.3 kB] Fetched 14.3 kB in 0s (1265 kB/s) dpkg-name: info: moved 'libaudit-common_1%3a4.1.2-1_all.deb' to '/srv/rebuilderd/tmp/tmp8kfp9mtj/libaudit-common_4.1.2-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libc6 i386 2.42-5 [1677 kB] Fetched 1677 kB in 0s (84.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu7mzq8wy/libc6_2.42-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libtool all 2.5.4-9 [540 kB] Fetched 540 kB in 0s (43.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvxzc6ln6/libtool_2.5.4-9_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-networkx all 3.4.2-4 [24.1 MB] Fetched 24.1 MB in 1s (30.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_lx4s9p9/python3-networkx_3.4.2-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libmpc3 i386 1.3.1-2 [60.3 kB] Fetched 60.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnlhbhlbd/libmpc3_1.3.1-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 debianutils i386 5.23.2 [92.7 kB] Fetched 92.7 kB in 0s (8670 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa3pfiy9m/debianutils_5.23.2_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libbinutils i386 2.45.50.20251201-1 [586 kB] Fetched 586 kB in 0s (37.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuljei7da/libbinutils_2.45.50.20251201-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libperl5.40 i386 5.40.1-7 [3962 kB] Fetched 3962 kB in 0s (142 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2gg5f430/libperl5.40_5.40.1-7_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3.13 i386 3.13.11-1+b1 [770 kB] Fetched 770 kB in 0s (49.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcohqq78o/python3.13_3.13.11-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libkrb5support0 i386 1.22.1-2 [35.3 kB] Fetched 35.3 kB in 0s (3392 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwnlpf_ku/libkrb5support0_1.22.1-2_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 binutils-i686-linux-gnu i386 2.45.50.20251201-1 [1118 kB] Fetched 1118 kB in 0s (72.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq5cyad67/binutils-i686-linux-gnu_2.45.50.20251201-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 util-linux i386 2.41.2-4 [1196 kB] Fetched 1196 kB in 0s (67.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp797oe1u2/util-linux_2.41.2-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3.14-minimal i386 3.14.2-1+b1 [2389 kB] Fetched 2389 kB in 0s (102 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq224nggh/python3.14-minimal_3.14.2-1+b1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libstdc++6 i386 15.2.0-10 [781 kB] Fetched 781 kB in 0s (51.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7bm00pmj/libstdc++6_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libncursesw6 i386 6.5+20251123-1 [148 kB] Fetched 148 kB in 0s (14.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfvp172zg/libncursesw6_6.5+20251123-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libunistring5 i386 1.3-2 [471 kB] Fetched 471 kB in 0s (38.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyn9mihem/libunistring5_1.3-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Fetched 72.4 kB in 0s (6251 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz0u5wd67/python3-requests_2.32.5+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-tinycss2 all 1.4.0-2 [25.0 kB] Fetched 25.0 kB in 0s (2289 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuzu1uda4/python3-tinycss2_1.4.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jaraco.text all 4.0.0-1 [11.4 kB] Fetched 11.4 kB in 0s (1127 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmc35hiyc/python3-jaraco.text_4.0.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-defusedxml all 0.7.1-3 [43.4 kB] Fetched 43.4 kB in 0s (3338 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpphwbv87e/python3-defusedxml_0.7.1-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libubsan1 i386 15.2.0-10 [1081 kB] Fetched 1081 kB in 0s (71.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm0axn9bv/libubsan1_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libcap2 i386 1:2.75-10+b2 [29.8 kB] Fetched 29.8 kB in 0s (2894 kB/s) dpkg-name: info: moved 'libcap2_1%3a2.75-10+b2_i386.deb' to '/srv/rebuilderd/tmp/tmp1bnmrmaz/libcap2_2.75-10+b2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 cpp i386 4:15.2.0-4 [1564 B] Fetched 1564 B in 0s (116 kB/s) dpkg-name: info: moved 'cpp_4%3a15.2.0-4_i386.deb' to '/srv/rebuilderd/tmp/tmpqm6w6_1v/cpp_15.2.0-4_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libc-bin i386 2.42-5 [660 kB] Fetched 660 kB in 0s (48.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp43vlb_6_/libc-bin_2.42-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpam0g i386 1.7.0-5 [72.8 kB] Fetched 72.8 kB in 0s (5975 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqqb2u3xv/libpam0g_1.7.0-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 netbase all 6.5 [12.4 kB] Fetched 12.4 kB in 0s (1135 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3r9fozk9/netbase_6.5_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-typing-extensions all 4.15.0-1 [92.4 kB] Fetched 92.4 kB in 0s (8778 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_s3qxp9u/python3-typing-extensions_4.15.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 gcc-15-i686-linux-gnu i386 15.2.0-10 [25.3 MB] Fetched 25.3 MB in 0s (184 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf_mwbuxs/gcc-15-i686-linux-gnu_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 liblz4-1 i386 1.10.0-6 [64.9 kB] Fetched 64.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmh7q5hb3/liblz4-1_1.10.0-6_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 diffutils i386 1:3.12-1 [413 kB] Fetched 413 kB in 0s (34.5 MB/s) dpkg-name: info: moved 'diffutils_1%3a3.12-1_i386.deb' to '/srv/rebuilderd/tmp/tmp0l98mz4m/diffutils_3.12-1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 binutils-common i386 2.45.50.20251201-1 [2543 kB] Fetched 2543 kB in 0s (120 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp83fcu85n/binutils-common_2.45.50.20251201-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3.13-dev i386 3.13.11-1+b1 [504 kB] Fetched 504 kB in 0s (38.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1u25_esi/python3.13-dev_3.13.11-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3 i386 3.13.9-2 [27.5 kB] Fetched 27.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt49huaef/python3_3.13.9-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 automake all 1:1.18.1-3 [878 kB] Fetched 878 kB in 0s (61.0 MB/s) dpkg-name: info: moved 'automake_1%3a1.18.1-3_all.deb' to '/srv/rebuilderd/tmp/tmp3c5qr4wm/automake_1.18.1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libcurl3t64-gnutls i386 8.17.0-3 [446 kB] Fetched 446 kB in 0s (32.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp6g0mwsw/libcurl3t64-gnutls_8.17.0-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-numpy-dev i386 1:2.3.5+ds-2+b1 [147 kB] Fetched 147 kB in 0s (12.6 MB/s) dpkg-name: info: moved 'python3-numpy-dev_1%3a2.3.5+ds-2+b1_i386.deb' to '/srv/rebuilderd/tmp/tmpryxfyp0m/python3-numpy-dev_2.3.5+ds-2+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libbrotli1 i386 1.1.0-2+b9 [298 kB] Fetched 298 kB in 0s (25.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3px0kl9t/libbrotli1_1.1.0-2+b9_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libcc1-0 i386 15.2.0-10 [44.9 kB] Fetched 44.9 kB in 0s (3829 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxabkzevq/libcc1-0_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-zipp all 3.23.0-1 [11.0 kB] Fetched 11.0 kB in 0s (1065 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpti7c8_l9/python3-zipp_3.23.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.46-5 [117 kB] Fetched 117 kB in 0s (10.8 MB/s) dpkg-name: info: moved 'libmagic1t64_1%3a5.46-5_i386.deb' to '/srv/rebuilderd/tmp/tmpcnmnc0gw/libmagic1t64_5.46-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libbz2-1.0 i386 1.0.8-6 [38.1 kB] Fetched 38.1 kB in 0s (3480 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1nk76s08/libbz2-1.0_1.0.8-6_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-bs4 all 4.14.3-1 [118 kB] Fetched 118 kB in 0s (9844 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi7wl7kzg/python3-bs4_4.14.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-webencodings all 0.5.1-5 [11.1 kB] Fetched 11.1 kB in 0s (1009 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxhgps6_v/python3-webencodings_0.5.1-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-docutils all 0.22.3+dfsg-1 [432 kB] Fetched 432 kB in 0s (34.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy9ddi1ln/python3-docutils_0.22.3+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libcom-err2 i386 1.47.2-3+b4 [25.3 kB] Fetched 25.3 kB in 0s (2430 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc5fug7_6/libcom-err2_1.47.2-3+b4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 sed i386 4.9-2 [333 kB] Fetched 333 kB in 0s (29.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsxau8c58/sed_4.9-2_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libgprofng0 i386 2.45.50.20251201-1 [859 kB] Fetched 859 kB in 0s (53.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk038bf6l/libgprofng0_2.45.50.20251201-1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 linux-libc-dev all 6.17.10-1 [2560 kB] Fetched 2560 kB in 0s (126 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpadkmhuon/linux-libc-dev_6.17.10-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3-all-dev i386 3.13.9-2 [1072 B] Fetched 1072 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8klzxe6_/libpython3-all-dev_3.13.9-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libk5crypto3 i386 1.22.1-2 [83.6 kB] Fetched 83.6 kB in 0s (6807 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9xa690gg/libk5crypto3_1.22.1-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libbsd0 i386 0.12.2-2 [134 kB] Fetched 134 kB in 0s (11.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2n_mbhba/libbsd0_0.12.2-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libtinfo6 i386 6.5+20251123-1 [354 kB] Fetched 354 kB in 0s (26.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpebkmz381/libtinfo6_6.5+20251123-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.22 [216 kB] Fetched 216 kB in 0s (15.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2lqdgom7/po-debconf_1.0.22_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libblas3 i386 3.12.1-7 [149 kB] Fetched 149 kB in 0s (12.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9n6s2g3n/libblas3_3.12.1-7_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 build-essential i386 12.12 [4620 B] Fetched 4620 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1g81ecgw/build-essential_12.12_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 findutils i386 4.10.0-3 [714 kB] Fetched 714 kB in 0s (60.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprgiwzouz/findutils_4.10.0-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-typeguard all 4.4.4-1 [37.1 kB] Fetched 37.1 kB in 0s (3423 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6bu2zb85/python3-typeguard_4.4.4-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3.14-minimal i386 3.14.2-1+b1 [896 kB] Fetched 896 kB in 0s (58.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph3ambaon/libpython3.14-minimal_3.14.2-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-decorator all 5.2.1-2 [33.0 kB] Fetched 33.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyzcq71e5/python3-decorator_5.2.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 dpkg-dev all 1.22.21 [1338 kB] Fetched 1338 kB in 0s (85.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6_hk2_lt/dpkg-dev_1.22.21_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-minimal i386 3.13.9-2 [27.5 kB] Fetched 27.5 kB in 0s (2362 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7s0s6_fa/python3-minimal_3.13.9-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libjson-perl all 4.10000-1 [87.5 kB] Fetched 87.5 kB in 0s (7477 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbrgl1lky/libjson-perl_4.10000-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-10 [20.8 kB] Fetched 20.8 kB in 0s (1909 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwrdp3420/libsasl2-modules-db_2.1.28+dfsg1-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-traitlets all 5.14.3+really5.14.3-2 [71.1 kB] Fetched 71.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsa0jd4oc/python3-traitlets_5.14.3+really5.14.3-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libblosc1 i386 1.21.5+ds-2 [51.2 kB] Fetched 51.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpniuik5pl/libblosc1_1.21.5+ds-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libqhull-r8.0 i386 2020.2-7 [259 kB] Fetched 259 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpemndzzs5/libqhull-r8.0_2020.2-7_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 ncurses-base all 6.5+20251123-1 [277 kB] Fetched 277 kB in 0s (24.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpepp0vrsy/ncurses-base_6.5+20251123-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libzmq5 i386 4.3.5-1+b3 [308 kB] Fetched 308 kB in 0s (25.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmc0992l0/libzmq5_4.3.5-1+b3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pyparsing all 3.1.3-1 [148 kB] Fetched 148 kB in 0s (13.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfufwh3tk/python3-pyparsing_3.1.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.23.2-1 [246 kB] Fetched 246 kB in 0s (19.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr8j9jopn/gettext-base_0.23.2-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Fetched 18.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvhfj_qou/python3-installer_0.7.0+dfsg1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libnetcdf22 i386 1:4.9.3-1+b1 [570 kB] Fetched 570 kB in 0s (36.0 MB/s) dpkg-name: info: moved 'libnetcdf22_1%3a4.9.3-1+b1_i386.deb' to '/srv/rebuilderd/tmp/tmp8a3n6ntm/libnetcdf22_4.9.3-1+b1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libc-dev-bin i386 2.42-5 [60.2 kB] Fetched 60.2 kB in 0s (5008 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpebihcmm3/libc-dev-bin_2.42-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 perl i386 5.40.1-7 [267 kB] Fetched 267 kB in 0s (23.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzdlx3j3w/perl_5.40.1-7_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libgnutls30t64 i386 3.8.11-3 [1499 kB] Fetched 1499 kB in 0s (84.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3euyvcwr/libgnutls30t64_3.8.11-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 grep i386 3.12-1 [451 kB] Fetched 451 kB in 0s (37.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpndqbsatp/grep_3.12-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jupyterlab-pygments all 0.2.2-3 [6096 B] Fetched 6096 B in 0s (584 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprgybznea/python3-jupyterlab-pygments_0.2.2-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libgcc-15-dev i386 15.2.0-10 [2623 kB] Fetched 2623 kB in 0s (126 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9yun8zuw/libgcc-15-dev_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libmd0 i386 1.1.0-2+b1 [38.4 kB] Fetched 38.4 kB in 0s (3446 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpphdmdogd/libmd0_1.1.0-2+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libldap2 i386 2.6.10+dfsg-1 [208 kB] Fetched 208 kB in 0s (20.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzeqxjaiy/libldap2_2.6.10+dfsg-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Fetched 11.7 kB in 0s (1087 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw8k70vo7/python3-pyproject-hooks_1.2.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 dpkg i386 1.22.21 [1564 kB] Fetched 1564 kB in 0s (83.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw3f7w5qf/dpkg_1.22.21_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 docutils-common all 0.22.3+dfsg-1 [128 kB] Fetched 128 kB in 0s (10.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfwm_gxi9/docutils-common_0.22.3+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libmount1 i386 2.41.2-4 [227 kB] Fetched 227 kB in 0s (18.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6gx5ldfp/libmount1_2.41.2-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 patch i386 2.8-2 [142 kB] Fetched 142 kB in 0s (13.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpanauwv2b/patch_2.8-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libssl3t64 i386 3.5.4-1 [2417 kB] Fetched 2417 kB in 0s (92.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfzytm36r/libssl3t64_3.5.4-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 21 [12.2 kB] Fetched 12.2 kB in 0s (886 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz4mppd4l/dh-autoreconf_21_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libdebconfclient0 i386 0.282 [10.9 kB] Fetched 10.9 kB in 0s (1091 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0qu_sves/libdebconfclient0_0.282_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3-dev i386 3.13.9-2 [10.7 kB] Fetched 10.7 kB in 0s (935 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmr9k_hqs/libpython3-dev_3.13.9-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpsl5t64 i386 0.21.2-1.1+b1 [57.7 kB] Fetched 57.7 kB in 0s (5543 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmy4n95b4/libpsl5t64_0.21.2-1.1+b1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libctf-nobfd0 i386 2.45.50.20251201-1 [161 kB] Fetched 161 kB in 0s (11.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpych99w4k/libctf-nobfd0_2.45.50.20251201-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libnghttp3-9 i386 1.12.0-1 [80.1 kB] Fetched 80.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpteryensx/libnghttp3-9_1.12.0-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-scipy i386 1.16.3-2 [18.0 MB] Fetched 18.0 MB in 0s (88.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmkiy_1f9/python3-scipy_1.16.3-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 openssl-provider-legacy i386 3.5.4-1 [305 kB] Fetched 305 kB in 0s (22.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjq1ge810/openssl-provider-legacy_3.5.4-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libblosc2-4 i386 2.17.1+ds-2 [220 kB] Fetched 220 kB in 0s (17.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnoamsdm5/libblosc2-4_2.17.1+ds-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-2 [68.9 kB] Fetched 68.9 kB in 0s (5642 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbzd7unhb/libuchardet0_0.0.8-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 liblapack3 i386 3.12.1-7 [2160 kB] Fetched 2160 kB in 0s (112 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr_tdoay9/liblapack3_3.12.1-7_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 ca-certificates all 20250419 [162 kB] Fetched 162 kB in 0s (14.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps4h2_iwg/ca-certificates_20250419_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libaec0 i386 1.1.4-2 [25.0 kB] Fetched 25.0 kB in 0s (2290 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy5345pr4/libaec0_1.1.4-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 hostname i386 3.25 [11.3 kB] Fetched 11.3 kB in 0s (1008 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpja2p_2zv/hostname_3.25_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pytest-rerunfailures all 16.1-1 [18.2 kB] Fetched 18.2 kB in 0s (1596 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1l2vpnh2/python3-pytest-rerunfailures_16.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 gettext i386 0.23.2-1 [1718 kB] Fetched 1718 kB in 0s (95.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptpafi4gc/gettext_0.23.2-1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 binutils i386 2.45.50.20251201-1 [289 kB] Fetched 289 kB in 0s (23.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphqzcswbm/binutils_2.45.50.20251201-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-sphinx all 8.2.3-11 [478 kB] Fetched 478 kB in 0s (27.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfqlq5jle/python3-sphinx_8.2.3-11_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-netcdf4 i386 1.7.3-1+b1 [798 kB] Fetched 798 kB in 0s (43.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp73s873of/python3-netcdf4_1.7.3-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 rpcsvc-proto i386 1.4.3-1 [66.1 kB] Fetched 66.1 kB in 0s (5407 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfdt6fx7_/rpcsvc-proto_1.4.3-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-packaging all 25.0-1 [56.6 kB] Fetched 56.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaey5evk1/python3-packaging_25.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libdb5.3t64 i386 5.3.28+dfsg2-11 [768 kB] Fetched 768 kB in 0s (49.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk8odfl3y/libdb5.3t64_5.3.28+dfsg2-11_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libseccomp2 i386 2.6.0-2+b1 [55.0 kB] Fetched 55.0 kB in 0s (4272 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpff59d6t7/libseccomp2_2.6.0-2+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 base-files i386 14 [72.9 kB] Fetched 72.9 kB in 0s (6133 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo8ieckir/base-files_14_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.26 [27.0 kB] Fetched 27.0 kB in 0s (2122 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvye1aeqy/sensible-utils_0.0.26_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-alabaster all 0.7.16-0.1 [27.9 kB] Fetched 27.9 kB in 0s (2302 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3grul22k/python3-alabaster_0.7.16-0.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 cython3 i386 3.1.6+dfsg-2+b1 [3090 kB] Fetched 3090 kB in 0s (132 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy84h4shz/cython3_3.1.6+dfsg-2+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 dh-python all 6.20251204.1 [114 kB] Fetched 114 kB in 0s (10.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoc368_8x/dh-python_6.20251204.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-fastjsonschema all 2.21.1-1 [22.4 kB] Fetched 22.4 kB in 0s (1845 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8ank3skv/python3-fastjsonschema_2.21.1-1_all.deb' Downloading dependency 129 of 315: sysvinit-utils:i386=3.15-6 Downloading dependency 130 of 315: libudev1:i386=259~rc2-1 Downloading dependency 131 of 315: libelf1t64:i386=0.194-1 Downloading dependency 132 of 315: python3-html5lib:i386=1.2-2 Downloading dependency 133 of 315: python3-mistune:i386=3.1.4-1 Downloading dependency 134 of 315: bzip2:i386=1.0.8-6 Downloading dependency 135 of 315: libstdc++-15-dev:i386=15.2.0-10 Downloading dependency 136 of 315: python3.14-dev:i386=3.14.2-1+b1 Downloading dependency 137 of 315: python-tinycss2-common:i386=1.4.0-2 Downloading dependency 138 of 315: python3-chardet:i386=5.2.0+dfsg-2 Downloading dependency 139 of 315: 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Downloading dependency 218 of 315: python3-jupyterlab-pygments:i386=0.2.2-3 Downloading dependency 219 of 315: libgcc-15-dev:i386=15.2.0-10 Downloading dependency 220 of 315: libmd0:i386=1.1.0-2+b1 Downloading dependency 221 of 315: libldap2:i386=2.6.10+dfsg-1 Downloading dependency 222 of 315: python3-pyproject-hooks:i386=1.2.0-1 Downloading dependency 223 of 315: dpkg:i386=1.22.21 Downloading dependency 224 of 315: docutils-common:i386=0.22.3+dfsg-1 Downloading dependency 225 of 315: libmount1:i386=2.41.2-4 Downloading dependency 226 of 315: patch:i386=2.8-2 Downloading dependency 227 of 315: libssl3t64:i386=3.5.4-1 Downloading dependency 228 of 315: dh-autoreconf:i386=21 Downloading dependency 229 of 315: libdebconfclient0:i386=0.282 Downloading dependency 230 of 315: libpython3-dev:i386=3.13.9-2 Downloading dependency 231 of 315: libpsl5t64:i386=0.21.2-1.1+b1 Downloading dependency 232 of 315: libctf-nobfd0:i386=2.45.50.20251201-1 Downloading dependency 233 of 315: libnghttp3-9:i386=1.12.0-1 Downloading dependency 234 of 315: python3-scipy:i386=1.16.3-2 Downloading dependency 235 of 315: openssl-provider-legacy:i386=3.5.4-1 Downloading dependency 236 of 315: libblosc2-4:i386=2.17.1+ds-2 Downloading dependency 237 of 315: libuchardet0:i386=0.0.8-2 Downloading dependency 238 of 315: liblapack3:i386=3.12.1-7 Downloading dependency 239 of 315: ca-certificates:i386=20250419 Downloading dependency 240 of 315: libaec0:i386=1.1.4-2 Downloading dependency 241 of 315: hostname:i386=3.25 Downloading dependency 242 of 315: python3-pytest-rerunfailures:i386=16.1-1 Downloading dependency 243 of 315: gettext:i386=0.23.2-1 Downloading dependency 244 of 315: binutils:i386=2.45.50.20251201-1 Downloading dependency 245 of 315: python3-sphinx:i386=8.2.3-11 Downloading dependency 246 of 315: python3-netcdf4:i386=1.7.3-1+b1 Downloading dependency 247 of 315: rpcsvc-proto:i386=1.4.3-1 Downloading dependency 248 of 315: python3-packaging:i386=25.0-1 Downloading dependency 249 of 315: libdb5.3t64:i386=5.3.28+dfsg2-11 Downloading dependency 250 of 315: libseccomp2:i386=2.6.0-2+b1 Downloading dependency 251 of 315: base-files:i386=14 Downloading dependency 252 of 315: sensible-utils:i386=0.0.26 Downloading dependency 253 of 315: python3-alabaster:i386=0.7.16-0.1 Downloading dependency 254 of 315: cython3:i386=3.1.6+dfsg-2+b1 Downloading dependency 255 of 315: dh-python:i386=6.20251204.1 Downloading dependency 256 of 315: python3-fastjsonschema:i386=2.21.1-1 Downloading dependency 257 of 315: python3-psutil:i386=7.1.0-1Get:1 http://deb.debian.org/debian unstable/main i386 python3-psutil i386 7.1.0-1 [225 kB] Fetched 225 kB in 0s (2068 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkc0q4kr0/python3-psutil_7.1.0-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 xml-core all 0.19 [20.1 kB] Fetched 20.1 kB in 0s (1667 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4e4jdwxz/xml-core_0.19_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libselinux1 i386 3.9-4+b1 [89.2 kB] Fetched 89.2 kB in 0s (7596 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb6vyu8y9/libselinux1_3.9-4+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 bash i386 5.3-1 [1591 kB] Fetched 1591 kB in 0s (91.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkz1g0l3i/bash_5.3-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libhdf5-hl-310 i386 1.14.5+repack-4 [81.5 kB] Fetched 81.5 kB in 0s (6364 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphqvualqy/libhdf5-hl-310_1.14.5+repack-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 dwz i386 0.16-2 [116 kB] Fetched 116 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppllfrdc1/dwz_0.16-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 ncurses-bin i386 6.5+20251123-1 [446 kB] Fetched 446 kB in 0s (27.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp65fffa53/ncurses-bin_6.5+20251123-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpcre2-8-0 i386 10.46-1 [296 kB] Fetched 296 kB in 0s (23.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd8a8pm8w/libpcre2-8-0_10.46-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 mawk i386 1.3.4.20250131-1 [144 kB] Fetched 144 kB in 0s (11.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplbb2iv27/mawk_1.3.4.20250131-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libuuid1 i386 2.41.2-4 [40.0 kB] Fetched 40.0 kB in 0s (3711 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx1xpcpuy/libuuid1_2.41.2-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-gsd i386 4.2.0-1 [209 kB] Fetched 209 kB in 0s (16.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_oafians/python3-gsd_4.2.0-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python-babel-localedata all 2.17.0-2 [6052 kB] Fetched 6052 kB in 0s (122 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpug53o4et/python-babel-localedata_2.17.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3.14-dev i386 3.14.2-1+b1 [5452 kB] Fetched 5452 kB in 0s (119 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc2dg62ek/libpython3.14-dev_3.14.2-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pkg-resources all 78.1.1-0.1 [224 kB] Fetched 224 kB in 0s (21.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps_zu2eum/python3-pkg-resources_78.1.1-0.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-urllib3 all 2.5.0-1 [116 kB] Fetched 116 kB in 0s (10.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8v3xtnrg/python3-urllib3_2.5.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libacl1 i386 2.3.2-2+b1 [34.4 kB] Fetched 34.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn04vttpo/libacl1_2.3.2-2+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3.1 [494 kB] Fetched 494 kB in 0s (42.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkqi2dtyt/autoconf_2.72-3.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-more-itertools all 10.8.0-1 [71.7 kB] Fetched 71.7 kB in 0s (6315 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph0eiej8c/python3-more-itertools_10.8.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libidn2-0 i386 2.3.8-4 [111 kB] Fetched 111 kB in 0s (10.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgn3oy1lo/libidn2-0_2.3.8-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libnorm1t64 i386 1.5.9+dfsg-4 [242 kB] Fetched 242 kB in 0s (18.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3e4n2wdw/libnorm1t64_1.5.9+dfsg-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libkrb5-3 i386 1.22.1-2 [359 kB] Fetched 359 kB in 0s (22.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcxq1p4bp/libkrb5-3_1.22.1-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libnghttp2-14 i386 1.64.0-1.1+b1 [84.0 kB] Fetched 84.0 kB in 0s (7681 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_boxhcfu/libnghttp2-14_1.64.0-1.1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-dateutil all 2.9.0-4 [79.4 kB] Fetched 79.4 kB in 0s (7178 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp012k4fbs/python3-dateutil_2.9.0-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libcrypt1 i386 1:4.5.1-1 [104 kB] Fetched 104 kB in 0s (9127 kB/s) dpkg-name: info: moved 'libcrypt1_1%3a4.5.1-1_i386.deb' to '/srv/rebuilderd/tmp/tmp3dgwsea8/libcrypt1_4.5.1-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Fetched 104 kB in 0s (8953 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpulz2tyyk/libarchive-zip-perl_1.68-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libgomp1 i386 15.2.0-10 [142 kB] Fetched 142 kB in 0s (14.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphqy4rghn/libgomp1_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libaudit1 i386 1:4.1.2-1+b1 [58.5 kB] Fetched 58.5 kB in 0s (0 B/s) dpkg-name: info: moved 'libaudit1_1%3a4.1.2-1+b1_i386.deb' to '/srv/rebuilderd/tmp/tmp7igz80lv/libaudit1_4.1.2-1+b1_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 gcc-15 i386 15.2.0-10 [529 kB] Fetched 529 kB in 0s (42.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpovyyj7hr/gcc-15_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-all-dev i386 3.13.9-2 [1076 B] Fetched 1076 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprlmrqcq7/python3-all-dev_3.13.9-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libxml2-16 i386 2.15.1+dfsg-2+b1 [670 kB] Fetched 670 kB in 0s (49.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppm7rr19l/libxml2-16_2.15.1+dfsg-2+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-jsonschema-specifications all 2023.12.1-4 [9092 B] Fetched 9092 B in 0s (899 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptztc6wcs/python3-jsonschema-specifications_2023.12.1-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 perl-modules-5.40 all 5.40.1-7 [3012 kB] Fetched 3012 kB in 0s (140 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4lzf4h69/perl-modules-5.40_5.40.1-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-idna all 3.10-1 [42.0 kB] Fetched 42.0 kB in 0s (3741 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsi3z99kt/python3-idna_3.10-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 media-types all 14.0.0 [30.8 kB] Fetched 30.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvzcmypfs/media-types_14.0.0_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpam-runtime all 1.7.0-5 [249 kB] Fetched 249 kB in 0s (21.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa407lixq/libpam-runtime_1.7.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libjs-sphinxdoc all 8.2.3-11 [27.8 kB] Fetched 27.8 kB in 0s (2276 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe7a0hhx0/libjs-sphinxdoc_8.2.3-11_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 libsystemd0 i386 259~rc2-1 [500 kB] Fetched 500 kB in 0s (40.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpminsib6z/libsystemd0_259~rc2-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libtasn1-6 i386 4.20.0-2 [51.6 kB] Fetched 51.6 kB in 0s (4179 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2mkj_3gg/libtasn1-6_4.20.0-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-cffi-backend i386 2.0.0-2+b1 [110 kB] Fetched 110 kB in 0s (10.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl71sym05/python3-cffi-backend_2.0.0-2+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libattr1 i386 1:2.5.2-3 [23.1 kB] Fetched 23.1 kB in 0s (2203 kB/s) dpkg-name: info: moved 'libattr1_1%3a2.5.2-3_i386.deb' to '/srv/rebuilderd/tmp/tmphqoflm69/libattr1_2.5.2-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 g++ i386 4:15.2.0-4 [1344 B] Fetched 1344 B in 0s (122 kB/s) dpkg-name: info: moved 'g++_4%3a15.2.0-4_i386.deb' to '/srv/rebuilderd/tmp/tmptzkr0wzi/g++_15.2.0-4_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-setuptools all 78.1.1-0.1 [738 kB] Fetched 738 kB in 0s (56.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqc63kaz6/python3-setuptools_78.1.1-0.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 sgml-base all 1.31+nmu1 [10.9 kB] Fetched 10.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphlun_bdj/sgml-base_1.31+nmu1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 dash i386 0.5.12-12 [103 kB] Fetched 103 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpguv2ne33/dash_0.5.12-12_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 zlib1g i386 1:1.3.dfsg+really1.3.1-1+b1 [84.7 kB] Fetched 84.7 kB in 0s (7626 kB/s) dpkg-name: info: moved 'zlib1g_1%3a1.3.dfsg+really1.3.1-1+b1_i386.deb' to '/srv/rebuilderd/tmp/tmpksvwnmtl/zlib1g_1.3.dfsg+really1.3.1-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Fetched 19.9 kB in 0s (1972 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdj5puzak/libfile-stripnondeterminism-perl_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 python3-pygments all 2.18.0+dfsg-2 [836 kB] Fetched 836 kB in 0s (49.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv10_cr4j/python3-pygments_2.18.0+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpython3.13-dev i386 3.13.11-1+b1 [5492 kB] Fetched 5492 kB in 0s (139 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_dwp_pwl/libpython3.13-dev_3.13.11-1+b1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libpam-modules i386 1.7.0-5 [193 kB] Fetched 193 kB in 0s (14.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpopou_482/libpam-modules_1.7.0-5_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 gzip i386 1.13-1 [139 kB] Fetched 139 kB in 0s (12.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgwtmryp3/gzip_1.13-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 make i386 4.4.1-3 [470 kB] Fetched 470 kB in 0s (35.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdy2_erqr/make_4.4.1-3_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libkeyutils1 i386 1.6.3-6 [9964 B] Fetched 9964 B in 0s (847 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbje72xvr/libkeyutils1_1.6.3-6_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libngtcp2-crypto-ossl0 i386 1.16.0-1 [28.1 kB] Fetched 28.1 kB in 0s (2400 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpppjwbq28/libngtcp2-crypto-ossl0_1.16.0-1_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 debconf all 1.5.91 [121 kB] Fetched 121 kB in 0s (11.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk0tyz9so/debconf_1.5.91_all.deb' Get:1 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.20-2 [327 kB] Fetched 327 kB in 0s (24.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwks4vso2/m4_1.4.20-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 liblzma5 i386 5.8.1-2 [320 kB] Fetched 320 kB in 0s (26.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmd7jibxn/liblzma5_5.8.1-2_i386.deb' Get:1 http://snapshot.debian.org/archive/debian/20251208T083436Z sid/main i386 gcc-15-base i386 15.2.0-10 [53.8 kB] Fetched 53.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz4j3nzyu/gcc-15-base_15.2.0-10_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 libgssapi-krb5-2 i386 1.22.1-2 [149 kB] Fetched 149 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzoiw4zm6/libgssapi-krb5-2_1.22.1-2_i386.deb' Get:1 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20240727.1 [60.2 kB] Fetched 60.2 kB in 0s (5963 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuv6pp1ll/autotools-dev_20240727.1_all.deb' dpkg-buildpackage: info: source package debootsnap-dummy dpkg-buildpackage: info: source version 1.0 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Equivs Dummy Package Generator dpkg-buildpackage: info: host architecture amd64 dpkg-source --before-build . debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/debootsnap-dummy/ dh_install dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'debootsnap-dummy' in '../debootsnap-dummy_1.0_all.deb'. dpkg-genbuildinfo --build=binary -O../debootsnap-dummy_1.0_amd64.buildinfo dpkg-genchanges --build=binary -O../debootsnap-dummy_1.0_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) The package has been created. Attention, the package has been created in the /srv/rebuilderd/tmp/tmp4x4m9gje/cache directory, not in ".." as indicated by the message above! I: automatically chosen mode: unshare I: i386 is different from amd64 but can be executed natively I: using /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u as tempdir I: running --setup-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/setup00.sh /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u 127.0.0.1 - - [14/Dec/2025 08:07:24] code 404, message File not found 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:45671 ./ InRelease 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./Release HTTP/1.1" 200 - Get:2 http://localhost:45671 ./ Release [462 B] 127.0.0.1 - - [14/Dec/2025 08:07:24] code 404, message File not found 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:45671 ./ Release.gpg 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./Packages HTTP/1.1" 200 - Get:4 http://localhost:45671 ./ Packages [394 kB] Fetched 394 kB in 0s (18.8 MB/s) Reading package lists... usr-is-merged found but not real -- not running merged-usr setup hook I: skipping apt-get update because it was already run I: downloading packages with apt... 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./gcc-15-base_15.2.0-10_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libc-gconv-modules-extra_2.42-5_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libc6_2.42-5_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libgcc-s1_15.2.0-10_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./mawk_1.3.4.20250131-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./base-files_14_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libtinfo6_6.5%2b20251123-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./debianutils_5.23.2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./bash_5.3-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libacl1_2.3.2-2%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libattr1_2.5.2-3_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libcap2_2.75-10%2bb2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libgmp10_6.3.0%2bdfsg-5_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libpcre2-8-0_10.46-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libselinux1_3.9-4%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libzstd1_1.5.7%2bdfsg-2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./zlib1g_1.3.dfsg%2breally1.3.1-1%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libssl3t64_3.5.4-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./openssl-provider-legacy_3.5.4-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libsystemd0_259%7erc2-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./coreutils_9.7-3_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./dash_0.5.12-12_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./diffutils_3.12-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libbz2-1.0_1.0.8-6_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./liblzma5_5.8.1-2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libmd0_1.1.0-2%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./tar_1.35%2bdfsg-3.1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./dpkg_1.22.21_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./findutils_4.10.0-3_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./grep_3.12-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./gzip_1.13-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./hostname_3.25_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./ncurses-bin_6.5%2b20251123-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libcrypt1_4.5.1-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./perl-base_5.40.1-7_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./sed_4.9-2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libaudit-common_4.1.2-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libcap-ng0_0.8.5-4%2bb2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libaudit1_4.1.2-1%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libdb5.3t64_5.3.28%2bdfsg2-11_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./debconf_1.5.91_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libpam0g_1.7.0-5_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libpam-modules-bin_1.7.0-5_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libpam-modules_1.7.0-5_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libpam-runtime_1.7.0-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:24] "GET /./libblkid1_2.41.2-4_i386.deb HTTP/1.1" 200 - 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I: extracting archives... I: running --extract-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/extract00.sh /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u 127.0.0.1 - - [14/Dec/2025 08:07:26] code 404, message File not found 127.0.0.1 - - [14/Dec/2025 08:07:26] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:45671 ./ InRelease 127.0.0.1 - - [14/Dec/2025 08:07:26] "GET /./Release HTTP/1.1" 304 - Hit:2 http://localhost:45671 ./ Release 127.0.0.1 - - [14/Dec/2025 08:07:26] code 404, message File not found 127.0.0.1 - - [14/Dec/2025 08:07:26] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:45671 ./ Release.gpg Reading package lists... usr-is-merged found but not real -- not running merged-usr extract hook I: installing essential packages... I: running --essential-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/essential00.sh /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u usr-is-merged was not installed in a previous hook -- not running merged-usr essential hook I: installing remaining packages inside the chroot... 127.0.0.1 - - [14/Dec/2025 08:07:39] "GET /./libexpat1_2.7.3-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:39] "GET /./libpython3.13-minimal_3.13.11-1%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:39] "GET /./python3.13-minimal_3.13.11-1%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:39] "GET /./python3-minimal_3.13.9-2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:39] "GET /./media-types_14.0.0_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:39] "GET /./netbase_6.5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:39] "GET /./tzdata_2025b-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:39] "GET /./libffi8_3.5.2-3_i386.deb HTTP/1.1" 200 - 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127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-all_3.13.9-2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-pytest_8.4.2-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-pandas_2.3.3%2bdfsg-3_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./libpython3.14-dev_3.14.2-1%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3.14-dev_3.14.2-1%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-networkx_3.4.2-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./libcurl3t64-gnutls_8.17.0-3_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./libpython3-all-dev_3.13.9-2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-decorator_5.2.1-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./libqhull-r8.0_2020.2-7_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-pyparsing_3.1.3-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./libhdf5-hl-310_1.14.5%2brepack-4_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./libnetcdf22_4.9.3-1%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-scipy_1.16.3-2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-pytest-rerunfailures_16.1-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-netcdf4_1.7.3-1%2bb1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-gsd_4.2.0-1_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./python3-all-dev_3.13.9-2_i386.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/Dec/2025 08:07:41] "GET /./debootsnap-dummy_1.0_all.deb HTTP/1.1" 200 - I: running --customize-hook directly: /srv/rebuilderd/tmp/tmp4x4m9gje/apt_install.sh /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u Reading package lists... Building dependency tree... Reading state information... libctf0 is already the newest version (2.45.50.20251201-1). libctf0 set to manually installed. python3-autocommand is already the newest version (2.2.2-3). python3-autocommand set to manually installed. libpgm-5.3-0t64 is already the newest version (5.3.128~dfsg-2.1+b1). libpgm-5.3-0t64 set to manually installed. file is already the newest version (1:5.46-5). file set to manually installed. libsnappy1v5 is already the newest version (1.2.2-2). libsnappy1v5 set to manually installed. libjs-mathjax is already the newest version (2.7.9+dfsg-1). libjs-mathjax set to manually installed. cpp-i686-linux-gnu is already the newest version (4:15.2.0-4). cpp-i686-linux-gnu set to manually installed. libffi8 is already the newest version (3.5.2-3). libffi8 set to manually installed. cpp-15-i686-linux-gnu is already the newest version (15.2.0-10). cpp-15-i686-linux-gnu set to manually installed. libmagic-mgc is already the newest version (1:5.46-5). libmagic-mgc set to manually installed. libsmartcols1 is already the newest version (2.41.2-4). libhogweed6t64 is already the newest version (3.10.2-1). libhogweed6t64 set to manually installed. python3-tornado is already the newest version (6.5.2-3). python3-tornado set to manually installed. libzstd1 is already the newest version (1.5.7+dfsg-2). libxxhash0 is already the newest version (0.8.3-2). libxxhash0 set to manually installed. python3-certifi is already the newest version (2025.11.12+ds-1). python3-certifi set to manually installed. libgdbm6t64 is already the newest version (1.26-1). libgdbm6t64 set to manually installed. cpp-15 is already the newest version (15.2.0-10). cpp-15 set to manually installed. libgfortran5 is already the newest version (15.2.0-10). libgfortran5 set to manually installed. libcap-ng0 is already the newest version (0.8.5-4+b2). python3-referencing is already the newest version (0.36.2-2). python3-referencing set to manually installed. g++-15-i686-linux-gnu is already the newest version (15.2.0-10). g++-15-i686-linux-gnu set to manually installed. python3-charset-normalizer is already the newest version (3.4.4-2). python3-charset-normalizer set to manually installed. libpython3.14 is already the newest version (3.14.2-1+b1). libpython3.14 set to manually installed. python3-jsonschema is already the newest version (4.25.1-2). python3-jsonschema set to manually installed. libreadline8t64 is already the newest version (8.3-3). libreadline8t64 set to manually installed. libsqlite3-0 is already the newest version (3.46.1-8). libsqlite3-0 set to manually installed. pybuild-plugin-pyproject is already the newest version (6.20251204.1). pybuild-plugin-pyproject set to manually installed. libnettle8t64 is already the newest version (3.10.2-1). libnettle8t64 set to manually installed. libsframe2 is already the newest version (2.45.50.20251201-1). libsframe2 set to manually installed. libsodium23 is already the newest version (1.0.18-1+b2). libsodium23 set to manually installed. python3-nbsphinx is already the newest version (0.9.5+ds-1). python3-nbsphinx set to manually installed. intltool-debian is already the newest version (0.35.0+20060710.6). intltool-debian set to manually installed. libquadmath0 is already the newest version (15.2.0-10). libquadmath0 set to manually installed. libgdbm-compat4t64 is already the newest version (1.26-1). libgdbm-compat4t64 set to manually installed. openssl is already the newest version (3.5.4-1). openssl set to manually installed. libjansson4 is already the newest version (2.14-2+b3). libjansson4 set to manually installed. libpipeline1 is already the newest version (1.5.8-2). libpipeline1 set to manually installed. python3-dev is already the newest version (3.13.9-2). python3-dev set to manually installed. python3-pandas-lib is already the newest version (2.3.3+dfsg-3). python3-pandas-lib set to manually installed. python3-cftime is already the newest version (1.6.5-1+b1). python3-cftime set to manually installed. xz-utils is already the newest version (5.8.1-2). xz-utils set to manually installed. groff-base is already the newest version (1.23.0-10). groff-base set to manually installed. python3-platformdirs is already the newest version (4.4.0-1). python3-platformdirs set to manually installed. python3.13-minimal is already the newest version (3.13.11-1+b1). python3.13-minimal set to manually installed. python3-versioneer is already the newest version (0.29-1). python3-versioneer set to manually installed. python3-rpds-py is already the newest version (0.28.0-1). python3-rpds-py set to manually installed. tzdata is already the newest version (2025b-5). tzdata set to manually installed. python3-attr is already the newest version (25.4.0-1). python3-attr set to manually installed. g++-15 is already the newest version (15.2.0-10). g++-15 set to manually installed. python3-jaraco.context is already the newest version (6.0.1-1). python3-jaraco.context set to manually installed. libngtcp2-crypto-gnutls8 is already the newest version (1.16.0-1). libngtcp2-crypto-gnutls8 set to manually installed. python3-nbconvert is already the newest version (7.16.6-1). python3-nbconvert set to manually installed. python3-tables-lib is already the newest version (3.10.2-3+b1). python3-tables-lib set to manually installed. python3-numpy is already the newest version (1:2.3.5+ds-2+b1). python3-numpy set to manually installed. python3-jinja2 is already the newest version (3.1.6-1). python3-jinja2 set to manually installed. sphinx-common is already the newest version (8.2.3-11). sphinx-common set to manually installed. python3-soupsieve is already the newest version (2.7-2). python3-soupsieve set to manually installed. python3-jupyter-core is already the newest version (5.7.2-5). python3-jupyter-core set to manually installed. python3-zmq is already the newest version (27.1.0-1+b1). python3-zmq set to manually installed. libisl23 is already the newest version (0.27-1). libisl23 set to manually installed. liblzo2-2 is already the newest version (2.10-3+b1). liblzo2-2 set to manually installed. python3-iniconfig is already the newest version (2.1.0-1). python3-iniconfig set to manually installed. autopoint is already the newest version (0.23.2-1). autopoint set to manually installed. libdebhelper-perl is already the newest version (13.28). libdebhelper-perl set to manually installed. libsasl2-2 is already the newest version (2.1.28+dfsg1-10). libsasl2-2 set to manually installed. python3-imagesize is already the newest version (1.4.1-1). python3-imagesize set to manually installed. libsz2 is already the newest version (1.1.4-2). libsz2 set to manually installed. python3-tables is already the newest version (3.10.2-3). python3-tables set to manually installed. python3-wheel is already the newest version (0.46.1-2). python3-wheel set to manually installed. python3-numexpr is already the newest version (2.14.1-1+b1). python3-numexpr set to manually installed. libpython3.14-stdlib is already the newest version (3.14.2-1+b1). libpython3.14-stdlib set to manually installed. libexpat1-dev is already the newest version (2.7.3-1). libexpat1-dev set to manually installed. librtmp1 is already the newest version (2.4+20151223.gitfa8646d.1-3). librtmp1 set to manually installed. python3-pluggy is already the newest version (1.6.0-1). python3-pluggy set to manually installed. gcc-i686-linux-gnu is already the newest version (4:15.2.0-4). gcc-i686-linux-gnu set to manually installed. init-system-helpers is already the newest version (1.69). libcrypt-dev is already the newest version (1:4.5.1-1). libcrypt-dev set to manually installed. dh-strip-nondeterminism is already the newest version (1.15.0-1). dh-strip-nondeterminism set to manually installed. libc6-dev is already the newest version (2.42-5). libc6-dev set to manually installed. libexpat1 is already the newest version (2.7.3-1). libexpat1 set to manually installed. libpython3-stdlib is already the newest version (3.13.9-2). libpython3-stdlib set to manually installed. libgcc-s1 is already the newest version (15.2.0-10). libasan8 is already the newest version (15.2.0-10). libasan8 set to manually installed. zlib1g-dev is already the newest version (1:1.3.dfsg+really1.3.1-1+b1). zlib1g-dev set to manually installed. python3-inflect is already the newest version (7.5.0-1). python3-inflect set to manually installed. coreutils is already the newest version (9.7-3). libpython3.13 is already the newest version (3.13.11-1+b1). libpython3.13 set to manually installed. libpython3.13-minimal is already the newest version (3.13.11-1+b1). libpython3.13-minimal set to manually installed. python3-nbformat is already the newest version (5.9.1-1). python3-nbformat set to manually installed. python3-babel is already the newest version (2.17.0-2). python3-babel set to manually installed. man-db is already the newest version (2.13.1-1). man-db set to manually installed. libhdf5-310 is already the newest version (1.14.5+repack-4). libhdf5-310 set to manually installed. libpam-modules-bin is already the newest version (1.7.0-5). python3-snowballstemmer is already the newest version (3.0.1-1). python3-snowballstemmer set to manually installed. libp11-kit0 is already the newest version (0.25.10-1). libp11-kit0 set to manually installed. python3-build is already the newest version (1.2.2-4). python3-build set to manually installed. perl-base is already the newest version (5.40.1-7). python3.14 is already the newest version (3.14.2-1+b1). python3.14 set to manually installed. python3-cpuinfo is already the newest version (9.0.0+git20221119-3). python3-cpuinfo set to manually installed. libatomic1 is already the newest version (15.2.0-10). libatomic1 set to manually installed. python3-jupyter-client is already the newest version (8.6.3-3). python3-jupyter-client set to manually installed. python3-pytz is already the newest version (2025.2-5). python3-pytz set to manually installed. libngtcp2-16 is already the newest version (1.16.0-1). libngtcp2-16 set to manually installed. libblkid1 is already the newest version (2.41.2-4). libcurl4t64 is already the newest version (8.17.0-3). libcurl4t64 set to manually installed. readline-common is already the newest version (8.3-3). readline-common set to manually installed. python3-bleach is already the newest version (6.3.0-1). python3-bleach set to manually installed. libdpkg-perl is already the newest version (1.22.21). libdpkg-perl set to manually installed. g++-i686-linux-gnu is already the newest version (4:15.2.0-4). g++-i686-linux-gnu set to manually installed. python3-all is already the newest version (3.13.9-2). python3-all set to manually installed. python3-pytest is already the newest version (8.4.2-1). python3-pytest set to manually installed. python3-nbclient is already the newest version (0.8.0-3). python3-nbclient set to manually installed. libgmp10 is already the newest version (2:6.3.0+dfsg-5). python3-pandocfilters is already the newest version (1.5.1-1). python3-pandocfilters set to manually installed. gcc is already the newest version (4:15.2.0-4). gcc set to manually installed. libmpfr6 is already the newest version (4.2.2-2). libmpfr6 set to manually installed. fonts-mathjax is already the newest version (2.7.9+dfsg-1). fonts-mathjax set to manually installed. python3-jaraco.functools is already the newest version (4.1.0-1). python3-jaraco.functools set to manually installed. libssh2-1t64 is already the newest version (1.11.1-1). libssh2-1t64 set to manually installed. base-passwd is already the newest version (3.6.8). debhelper is already the newest version (13.28). debhelper set to manually installed. bsdextrautils is already the newest version (2.41.2-4). bsdextrautils set to manually installed. libpython3.13-stdlib is already the newest version (3.13.11-1+b1). libpython3.13-stdlib set to manually installed. libc-gconv-modules-extra is already the newest version (2.42-5). python3-pandas is already the newest version (2.3.3+dfsg-3). python3-pandas set to manually installed. python3-roman-numerals is already the newest version (3.1.0-2). python3-roman-numerals set to manually installed. python3-markupsafe is already the newest version (3.0.3-1+b1). python3-markupsafe set to manually installed. sysvinit-utils is already the newest version (3.15-6). libudev1 is already the newest version (259~rc2-1). libelf1t64 is already the newest version (0.194-1). libelf1t64 set to manually installed. python3-html5lib is already the newest version (1.2-2). python3-html5lib set to manually installed. python3-mistune is already the newest version (3.1.4-1). python3-mistune set to manually installed. bzip2 is already the newest version (1.0.8-6). bzip2 set to manually installed. libstdc++-15-dev is already the newest version (15.2.0-10). libstdc++-15-dev set to manually installed. python3.14-dev is already the newest version (3.14.2-1+b1). python3.14-dev set to manually installed. python-tinycss2-common is already the newest version (1.4.0-2). python-tinycss2-common set to manually installed. python3-chardet is already the newest version (5.2.0+dfsg-2). python3-chardet set to manually installed. tar is already the newest version (1.35+dfsg-3.1). libitm1 is already the newest version (15.2.0-10). libitm1 set to manually installed. python-tables-data is already the newest version (3.10.2-3). python-tables-data set to manually installed. libaudit-common is already the newest version (1:4.1.2-1). libc6 is already the newest version (2.42-5). libtool is already the newest version (2.5.4-9). libtool set to manually installed. python3-networkx is already the newest version (3.4.2-4). python3-networkx set to manually installed. libmpc3 is already the newest version (1.3.1-2). libmpc3 set to manually installed. debianutils is already the newest version (5.23.2). libbinutils is already the newest version (2.45.50.20251201-1). libbinutils set to manually installed. libperl5.40 is already the newest version (5.40.1-7). libperl5.40 set to manually installed. python3.13 is already the newest version (3.13.11-1+b1). python3.13 set to manually installed. libkrb5support0 is already the newest version (1.22.1-2). libkrb5support0 set to manually installed. binutils-i686-linux-gnu is already the newest version (2.45.50.20251201-1). binutils-i686-linux-gnu set to manually installed. util-linux is already the newest version (2.41.2-4). python3.14-minimal is already the newest version (3.14.2-1+b1). python3.14-minimal set to manually installed. libstdc++6 is already the newest version (15.2.0-10). libstdc++6 set to manually installed. libncursesw6 is already the newest version (6.5+20251123-1). libncursesw6 set to manually installed. libunistring5 is already the newest version (1.3-2). libunistring5 set to manually installed. python3-requests is already the newest version (2.32.5+dfsg-1). python3-requests set to manually installed. python3-tinycss2 is already the newest version (1.4.0-2). python3-tinycss2 set to manually installed. python3-jaraco.text is already the newest version (4.0.0-1). python3-jaraco.text set to manually installed. python3-defusedxml is already the newest version (0.7.1-3). python3-defusedxml set to manually installed. libubsan1 is already the newest version (15.2.0-10). libubsan1 set to manually installed. libcap2 is already the newest version (1:2.75-10+b2). cpp is already the newest version (4:15.2.0-4). cpp set to manually installed. libc-bin is already the newest version (2.42-5). libpam0g is already the newest version (1.7.0-5). netbase is already the newest version (6.5). netbase set to manually installed. python3-typing-extensions is already the newest version (4.15.0-1). python3-typing-extensions set to manually installed. gcc-15-i686-linux-gnu is already the newest version (15.2.0-10). gcc-15-i686-linux-gnu set to manually installed. liblz4-1 is already the newest version (1.10.0-6). liblz4-1 set to manually installed. diffutils is already the newest version (1:3.12-1). binutils-common is already the newest version (2.45.50.20251201-1). binutils-common set to manually installed. python3.13-dev is already the newest version (3.13.11-1+b1). python3.13-dev set to manually installed. python3 is already the newest version (3.13.9-2). python3 set to manually installed. automake is already the newest version (1:1.18.1-3). automake set to manually installed. libcurl3t64-gnutls is already the newest version (8.17.0-3). libcurl3t64-gnutls set to manually installed. python3-numpy-dev is already the newest version (1:2.3.5+ds-2+b1). python3-numpy-dev set to manually installed. libbrotli1 is already the newest version (1.1.0-2+b9). libbrotli1 set to manually installed. libcc1-0 is already the newest version (15.2.0-10). libcc1-0 set to manually installed. python3-zipp is already the newest version (3.23.0-1). python3-zipp set to manually installed. libmagic1t64 is already the newest version (1:5.46-5). libmagic1t64 set to manually installed. libbz2-1.0 is already the newest version (1.0.8-6). python3-bs4 is already the newest version (4.14.3-1). python3-bs4 set to manually installed. python3-webencodings is already the newest version (0.5.1-5). python3-webencodings set to manually installed. python3-docutils is already the newest version (0.22.3+dfsg-1). python3-docutils set to manually installed. libcom-err2 is already the newest version (1.47.2-3+b4). libcom-err2 set to manually installed. sed is already the newest version (4.9-2). libgprofng0 is already the newest version (2.45.50.20251201-1). libgprofng0 set to manually installed. linux-libc-dev is already the newest version (6.17.10-1). linux-libc-dev set to manually installed. libpython3-all-dev is already the newest version (3.13.9-2). libpython3-all-dev set to manually installed. libk5crypto3 is already the newest version (1.22.1-2). libk5crypto3 set to manually installed. libbsd0 is already the newest version (0.12.2-2). libbsd0 set to manually installed. libtinfo6 is already the newest version (6.5+20251123-1). po-debconf is already the newest version (1.0.22). po-debconf set to manually installed. libblas3 is already the newest version (3.12.1-7). libblas3 set to manually installed. build-essential is already the newest version (12.12). build-essential set to manually installed. findutils is already the newest version (4.10.0-3). python3-typeguard is already the newest version (4.4.4-1). python3-typeguard set to manually installed. libpython3.14-minimal is already the newest version (3.14.2-1+b1). libpython3.14-minimal set to manually installed. python3-decorator is already the newest version (5.2.1-2). python3-decorator set to manually installed. dpkg-dev is already the newest version (1.22.21). dpkg-dev set to manually installed. python3-minimal is already the newest version (3.13.9-2). python3-minimal set to manually installed. libjson-perl is already the newest version (4.10000-1). libjson-perl set to manually installed. libsasl2-modules-db is already the newest version (2.1.28+dfsg1-10). libsasl2-modules-db set to manually installed. python3-traitlets is already the newest version (5.14.3+really5.14.3-2). python3-traitlets set to manually installed. libblosc1 is already the newest version (1.21.5+ds-2). libblosc1 set to manually installed. libqhull-r8.0 is already the newest version (2020.2-7). libqhull-r8.0 set to manually installed. ncurses-base is already the newest version (6.5+20251123-1). libzmq5 is already the newest version (4.3.5-1+b3). libzmq5 set to manually installed. python3-pyparsing is already the newest version (3.1.3-1). python3-pyparsing set to manually installed. gettext-base is already the newest version (0.23.2-1). gettext-base set to manually installed. python3-installer is already the newest version (0.7.0+dfsg1-3). python3-installer set to manually installed. libnetcdf22 is already the newest version (1:4.9.3-1+b1). libnetcdf22 set to manually installed. libc-dev-bin is already the newest version (2.42-5). libc-dev-bin set to manually installed. perl is already the newest version (5.40.1-7). perl set to manually installed. libgnutls30t64 is already the newest version (3.8.11-3). libgnutls30t64 set to manually installed. grep is already the newest version (3.12-1). python3-jupyterlab-pygments is already the newest version (0.2.2-3). python3-jupyterlab-pygments set to manually installed. libgcc-15-dev is already the newest version (15.2.0-10). libgcc-15-dev set to manually installed. libmd0 is already the newest version (1.1.0-2+b1). libldap2 is already the newest version (2.6.10+dfsg-1). libldap2 set to manually installed. python3-pyproject-hooks is already the newest version (1.2.0-1). python3-pyproject-hooks set to manually installed. dpkg is already the newest version (1.22.21). docutils-common is already the newest version (0.22.3+dfsg-1). docutils-common set to manually installed. libmount1 is already the newest version (2.41.2-4). patch is already the newest version (2.8-2). patch set to manually installed. libssl3t64 is already the newest version (3.5.4-1). dh-autoreconf is already the newest version (21). dh-autoreconf set to manually installed. libdebconfclient0 is already the newest version (0.282). libpython3-dev is already the newest version (3.13.9-2). libpython3-dev set to manually installed. libpsl5t64 is already the newest version (0.21.2-1.1+b1). libpsl5t64 set to manually installed. libctf-nobfd0 is already the newest version (2.45.50.20251201-1). libctf-nobfd0 set to manually installed. libnghttp3-9 is already the newest version (1.12.0-1). libnghttp3-9 set to manually installed. python3-scipy is already the newest version (1.16.3-2). python3-scipy set to manually installed. openssl-provider-legacy is already the newest version (3.5.4-1). libblosc2-4 is already the newest version (2.17.1+ds-2). libblosc2-4 set to manually installed. libuchardet0 is already the newest version (0.0.8-2). libuchardet0 set to manually installed. liblapack3 is already the newest version (3.12.1-7). liblapack3 set to manually installed. ca-certificates is already the newest version (20250419). ca-certificates set to manually installed. libaec0 is already the newest version (1.1.4-2). libaec0 set to manually installed. hostname is already the newest version (3.25). python3-pytest-rerunfailures is already the newest version (16.1-1). python3-pytest-rerunfailures set to manually installed. gettext is already the newest version (0.23.2-1). gettext set to manually installed. binutils is already the newest version (2.45.50.20251201-1). binutils set to manually installed. python3-sphinx is already the newest version (8.2.3-11). python3-sphinx set to manually installed. python3-netcdf4 is already the newest version (1.7.3-1+b1). python3-netcdf4 set to manually installed. rpcsvc-proto is already the newest version (1.4.3-1). rpcsvc-proto set to manually installed. python3-packaging is already the newest version (25.0-1). python3-packaging set to manually installed. libdb5.3t64 is already the newest version (5.3.28+dfsg2-11). libseccomp2 is already the newest version (2.6.0-2+b1). libseccomp2 set to manually installed. base-files is already the newest version (14). sensible-utils is already the newest version (0.0.26). sensible-utils set to manually installed. python3-alabaster is already the newest version (0.7.16-0.1). python3-alabaster set to manually installed. cython3 is already the newest version (3.1.6+dfsg-2+b1). cython3 set to manually installed. dh-python is already the newest version (6.20251204.1). dh-python set to manually installed. python3-fastjsonschema is already the newest version (2.21.1-1). python3-fastjsonschema set to manually installed. python3-psutil is already the newest version (7.1.0-1). python3-psutil set to manually installed. xml-core is already the newest version (0.19). xml-core set to manually installed. libselinux1 is already the newest version (3.9-4+b1). bash is already the newest version (5.3-1). libhdf5-hl-310 is already the newest version (1.14.5+repack-4). libhdf5-hl-310 set to manually installed. dwz is already the newest version (0.16-2). dwz set to manually installed. ncurses-bin is already the newest version (6.5+20251123-1). libpcre2-8-0 is already the newest version (10.46-1). mawk is already the newest version (1.3.4.20250131-1). libuuid1 is already the newest version (2.41.2-4). python3-gsd is already the newest version (4.2.0-1). python3-gsd set to manually installed. python-babel-localedata is already the newest version (2.17.0-2). python-babel-localedata set to manually installed. libpython3.14-dev is already the newest version (3.14.2-1+b1). libpython3.14-dev set to manually installed. python3-pkg-resources is already the newest version (78.1.1-0.1). python3-pkg-resources set to manually installed. python3-urllib3 is already the newest version (2.5.0-1). python3-urllib3 set to manually installed. libacl1 is already the newest version (2.3.2-2+b1). autoconf is already the newest version (2.72-3.1). autoconf set to manually installed. python3-more-itertools is already the newest version (10.8.0-1). python3-more-itertools set to manually installed. libidn2-0 is already the newest version (2.3.8-4). libidn2-0 set to manually installed. libnorm1t64 is already the newest version (1.5.9+dfsg-4). libnorm1t64 set to manually installed. libkrb5-3 is already the newest version (1.22.1-2). libkrb5-3 set to manually installed. libnghttp2-14 is already the newest version (1.64.0-1.1+b1). libnghttp2-14 set to manually installed. python3-dateutil is already the newest version (2.9.0-4). python3-dateutil set to manually installed. libcrypt1 is already the newest version (1:4.5.1-1). libarchive-zip-perl is already the newest version (1.68-1). libarchive-zip-perl set to manually installed. libgomp1 is already the newest version (15.2.0-10). libgomp1 set to manually installed. libaudit1 is already the newest version (1:4.1.2-1+b1). gcc-15 is already the newest version (15.2.0-10). gcc-15 set to manually installed. python3-all-dev is already the newest version (3.13.9-2). python3-all-dev set to manually installed. libxml2-16 is already the newest version (2.15.1+dfsg-2+b1). libxml2-16 set to manually installed. python3-jsonschema-specifications is already the newest version (2023.12.1-4). python3-jsonschema-specifications set to manually installed. perl-modules-5.40 is already the newest version (5.40.1-7). perl-modules-5.40 set to manually installed. python3-idna is already the newest version (3.10-1). python3-idna set to manually installed. media-types is already the newest version (14.0.0). media-types set to manually installed. libpam-runtime is already the newest version (1.7.0-5). libjs-sphinxdoc is already the newest version (8.2.3-11). libjs-sphinxdoc set to manually installed. libsystemd0 is already the newest version (259~rc2-1). libtasn1-6 is already the newest version (4.20.0-2). libtasn1-6 set to manually installed. python3-cffi-backend is already the newest version (2.0.0-2+b1). python3-cffi-backend set to manually installed. libattr1 is already the newest version (1:2.5.2-3). g++ is already the newest version (4:15.2.0-4). g++ set to manually installed. python3-setuptools is already the newest version (78.1.1-0.1). python3-setuptools set to manually installed. sgml-base is already the newest version (1.31+nmu1). sgml-base set to manually installed. dash is already the newest version (0.5.12-12). zlib1g is already the newest version (1:1.3.dfsg+really1.3.1-1+b1). libfile-stripnondeterminism-perl is already the newest version (1.15.0-1). libfile-stripnondeterminism-perl set to manually installed. python3-pygments is already the newest version (2.18.0+dfsg-2). python3-pygments set to manually installed. libpython3.13-dev is already the newest version (3.13.11-1+b1). libpython3.13-dev set to manually installed. libpam-modules is already the newest version (1.7.0-5). gzip is already the newest version (1.13-1). make is already the newest version (4.4.1-3). make set to manually installed. libkeyutils1 is already the newest version (1.6.3-6). libkeyutils1 set to manually installed. libngtcp2-crypto-ossl0 is already the newest version (1.16.0-1). libngtcp2-crypto-ossl0 set to manually installed. debconf is already the newest version (1.5.91). m4 is already the newest version (1.4.20-2). m4 set to manually installed. liblzma5 is already the newest version (5.8.1-2). gcc-15-base is already the newest version (15.2.0-10). libgssapi-krb5-2 is already the newest version (1.22.1-2). libgssapi-krb5-2 set to manually installed. autotools-dev is already the newest version (20240727.1). autotools-dev set to manually installed. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: running --customize-hook in shell: sh -c 'chroot "$1" dpkg -r debootsnap-dummy' exec /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u (Reading database ... 35509 files and directories currently installed.) Removing debootsnap-dummy (1.0) ... I: running --customize-hook in shell: sh -c 'chroot "$1" dpkg-query --showformat '${binary:Package}=${Version}\n' --show > "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u I: running special hook: download /pkglist ./pkglist I: running --customize-hook in shell: sh -c 'rm "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u I: running special hook: upload sources.list /etc/apt/sources.list I: waiting for background processes to finish... I: cleaning package lists and apt cache... I: skipping cleanup/reproducible as requested I: creating tarball... I: done I: removing tempdir /srv/rebuilderd/tmp/mmdebstrap.AV1dCuBw1u... I: success in 185.8610 seconds Downloading dependency 258 of 315: xml-core:i386=0.19 Downloading dependency 259 of 315: libselinux1:i386=3.9-4+b1 Downloading dependency 260 of 315: bash:i386=5.3-1 Downloading dependency 261 of 315: libhdf5-hl-310:i386=1.14.5+repack-4 Downloading dependency 262 of 315: dwz:i386=0.16-2 Downloading dependency 263 of 315: ncurses-bin:i386=6.5+20251123-1 Downloading dependency 264 of 315: libpcre2-8-0:i386=10.46-1 Downloading dependency 265 of 315: mawk:i386=1.3.4.20250131-1 Downloading dependency 266 of 315: libuuid1:i386=2.41.2-4 Downloading dependency 267 of 315: python3-gsd:i386=4.2.0-1 Downloading dependency 268 of 315: python-babel-localedata:i386=2.17.0-2 Downloading dependency 269 of 315: libpython3.14-dev:i386=3.14.2-1+b1 Downloading dependency 270 of 315: python3-pkg-resources:i386=78.1.1-0.1 Downloading dependency 271 of 315: python3-urllib3:i386=2.5.0-1 Downloading dependency 272 of 315: libacl1:i386=2.3.2-2+b1 Downloading dependency 273 of 315: autoconf:i386=2.72-3.1 Downloading dependency 274 of 315: python3-more-itertools:i386=10.8.0-1 Downloading dependency 275 of 315: libidn2-0:i386=2.3.8-4 Downloading dependency 276 of 315: libnorm1t64:i386=1.5.9+dfsg-4 Downloading dependency 277 of 315: libkrb5-3:i386=1.22.1-2 Downloading dependency 278 of 315: libnghttp2-14:i386=1.64.0-1.1+b1 Downloading dependency 279 of 315: python3-dateutil:i386=2.9.0-4 Downloading dependency 280 of 315: libcrypt1:i386=1:4.5.1-1 Downloading dependency 281 of 315: libarchive-zip-perl:i386=1.68-1 Downloading dependency 282 of 315: libgomp1:i386=15.2.0-10 Downloading dependency 283 of 315: libaudit1:i386=1:4.1.2-1+b1 Downloading dependency 284 of 315: gcc-15:i386=15.2.0-10 Downloading dependency 285 of 315: python3-all-dev:i386=3.13.9-2 Downloading dependency 286 of 315: libxml2-16:i386=2.15.1+dfsg-2+b1 Downloading dependency 287 of 315: python3-jsonschema-specifications:i386=2023.12.1-4 Downloading dependency 288 of 315: perl-modules-5.40:i386=5.40.1-7 Downloading dependency 289 of 315: python3-idna:i386=3.10-1 Downloading dependency 290 of 315: media-types:i386=14.0.0 Downloading dependency 291 of 315: libpam-runtime:i386=1.7.0-5 Downloading dependency 292 of 315: libjs-sphinxdoc:i386=8.2.3-11 Downloading dependency 293 of 315: libsystemd0:i386=259~rc2-1 Downloading dependency 294 of 315: libtasn1-6:i386=4.20.0-2 Downloading dependency 295 of 315: python3-cffi-backend:i386=2.0.0-2+b1 Downloading dependency 296 of 315: libattr1:i386=1:2.5.2-3 Downloading dependency 297 of 315: g++:i386=4:15.2.0-4 Downloading dependency 298 of 315: python3-setuptools:i386=78.1.1-0.1 Downloading dependency 299 of 315: sgml-base:i386=1.31+nmu1 Downloading dependency 300 of 315: dash:i386=0.5.12-12 Downloading dependency 301 of 315: zlib1g:i386=1:1.3.dfsg+really1.3.1-1+b1 Downloading dependency 302 of 315: libfile-stripnondeterminism-perl:i386=1.15.0-1 Downloading dependency 303 of 315: python3-pygments:i386=2.18.0+dfsg-2 Downloading dependency 304 of 315: libpython3.13-dev:i386=3.13.11-1+b1 Downloading dependency 305 of 315: libpam-modules:i386=1.7.0-5 Downloading dependency 306 of 315: gzip:i386=1.13-1 Downloading dependency 307 of 315: make:i386=4.4.1-3 Downloading dependency 308 of 315: libkeyutils1:i386=1.6.3-6 Downloading dependency 309 of 315: libngtcp2-crypto-ossl0:i386=1.16.0-1 Downloading dependency 310 of 315: debconf:i386=1.5.91 Downloading dependency 311 of 315: m4:i386=1.4.20-2 Downloading dependency 312 of 315: liblzma5:i386=5.8.1-2 Downloading dependency 313 of 315: gcc-15-base:i386=15.2.0-10 Downloading dependency 314 of 315: libgssapi-krb5-2:i386=1.22.1-2 Downloading dependency 315 of 315: autotools-dev:i386=20240727.1 env --chdir=/srv/rebuilderd/tmp/rebuilderdfigOhS/out DEB_BUILD_OPTIONS=parallel=6 LANG=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 SOURCE_DATE_EPOCH=1765292289 SBUILD_CONFIG=/srv/rebuilderd/tmp/debrebuildWAjp0s/debrebuild.sbuildrc.6x7jdGZqlaYa sbuild --build=i386 --host=i386 --no-source --arch-any --no-arch-all --binNMU-changelog= mdtraj (1.11.0-2+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for i386; no source changes. * Rebuild with Python 3.14 as supported -- all / amd64 / i386 Build Daemon (x86-conova-02) Tue, 09 Dec 2025 14:58:09 +0000 --chroot=/srv/rebuilderd/tmp/debrebuildWAjp0s/debrebuild.tar.CjRzStrIXic9 --chroot-mode=unshare --dist=unstable --no-run-lintian --no-run-piuparts --no-run-autopkgtest --no-apt-update --no-apt-upgrade --no-apt-distupgrade --verbose --nolog --bd-uninstallable-explainer= --build-path=/build/reproducible-path --dsc-dir=mdtraj-1.11.0 /srv/rebuilderd/tmp/rebuilderdfigOhS/inputs/mdtraj_1.11.0-2.dsc I: consider moving your ~/.sbuildrc to /srv/rebuilderd/.config/sbuild/config.pl The Debian buildds switched to the "unshare" backend and sbuild will default to it in the future. To start using "unshare" add this to your `~/.config/sbuild/config.pl`: $chroot_mode = "unshare"; If you want to keep the old "schroot" mode even in the future, add the following to your `~/.config/sbuild/config.pl`: $chroot_mode = "schroot"; $schroot = "schroot"; sbuild: warning: descr(l1): found blank line where expected first heading sbuild (Debian sbuild) 0.89.3+deb13u1 (16 August 2025) on infom07-amd64 +==============================================================================+ | mdtraj 1.11.0-2+b1 (i386) Sun, 14 Dec 2025 08:10:30 +0000 | +==============================================================================+ Package: mdtraj Version: 1.11.0-2+b1 Source Version: 1.11.0-2 Distribution: unstable Machine Architecture: amd64 Host Architecture: i386 Build Architecture: i386 Build Type: any I: No tarballs found in /srv/rebuilderd/.cache/sbuild I: Unpacking /srv/rebuilderd/tmp/debrebuildWAjp0s/debrebuild.tar.CjRzStrIXic9 to /srv/rebuilderd/tmp/tmp.sbuild.Ff0ku0EYwu... I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... I: Setting up apt archive... +------------------------------------------------------------------------------+ | Fetch source files Sun, 14 Dec 2025 08:10:38 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/rebuilderd/tmp/rebuilderdfigOhS/inputs/mdtraj_1.11.0-2.dsc exists in /srv/rebuilderd/tmp/rebuilderdfigOhS/inputs; copying to chroot sbuild: warning: descr(l1): found blank line where expected first heading +------------------------------------------------------------------------------+ | Install package build dependencies Sun, 14 Dec 2025 08:10:40 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-sequence-python3, dh-sequence-numpy3, pybuild-plugin-pyproject, cython3, python3-setuptools, python3-all-dev, python3-gsd, python3-numpy (>= 2.0.0~), python3-scipy, python3-nbsphinx, python3-netcdf4, python3-networkx, python3-packaging, python3-pandas, python3-pyparsing, python3-pytest, python3-pytest-rerunfailures, python3-sphinx, python3-tables, python3-versioneer, libjs-mathjax, build-essential Filtered Build-Depends: debhelper-compat (= 13), dh-sequence-python3, dh-sequence-numpy3, pybuild-plugin-pyproject, cython3, python3-setuptools, python3-all-dev, python3-gsd, python3-numpy (>= 2.0.0~), python3-scipy, python3-nbsphinx, python3-netcdf4, python3-networkx, python3-packaging, python3-pandas, python3-pyparsing, python3-pytest, python3-pytest-rerunfailures, python3-sphinx, python3-tables, python3-versioneer, libjs-mathjax, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/reproducible-path/resolver-fhfL7J/apt_archive/sbuild-build-depends-main-dummy.deb'. Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies +------------------------------------------------------------------------------+ | Check architectures Sun, 14 Dec 2025 08:10:46 +0000 | +------------------------------------------------------------------------------+ Arch check ok (i386 included in any-amd64 arm64 i386 all) +------------------------------------------------------------------------------+ | Build environment Sun, 14 Dec 2025 08:10:47 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.57+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.57-1 (2025-11-05) amd64 (x86_64) Toolchain package versions: binutils_2.45.50.20251201-1 dpkg-dev_1.22.21 g++-15_15.2.0-10 gcc-15_15.2.0-10 libc6-dev_2.42-5 libstdc++-15-dev_15.2.0-10 libstdc++6_15.2.0-10 linux-libc-dev_6.17.10-1 Package versions: autoconf_2.72-3.1 automake_1:1.18.1-3 autopoint_0.23.2-1 autotools-dev_20240727.1 base-files_14 base-passwd_3.6.8 bash_5.3-1 binutils_2.45.50.20251201-1 binutils-common_2.45.50.20251201-1 binutils-i686-linux-gnu_2.45.50.20251201-1 bsdextrautils_2.41.2-4 build-essential_12.12 bzip2_1.0.8-6 ca-certificates_20250419 coreutils_9.7-3 cpp_4:15.2.0-4 cpp-15_15.2.0-10 cpp-15-i686-linux-gnu_15.2.0-10 cpp-i686-linux-gnu_4:15.2.0-4 cython3_3.1.6+dfsg-2+b1 dash_0.5.12-12 debconf_1.5.91 debhelper_13.28 debianutils_5.23.2 dh-autoreconf_21 dh-python_6.20251204.1 dh-strip-nondeterminism_1.15.0-1 diffutils_1:3.12-1 docutils-common_0.22.3+dfsg-1 dpkg_1.22.21 dpkg-dev_1.22.21 dwz_0.16-2 file_1:5.46-5 findutils_4.10.0-3 fonts-mathjax_2.7.9+dfsg-1 g++_4:15.2.0-4 g++-15_15.2.0-10 g++-15-i686-linux-gnu_15.2.0-10 g++-i686-linux-gnu_4:15.2.0-4 gcc_4:15.2.0-4 gcc-15_15.2.0-10 gcc-15-base_15.2.0-10 gcc-15-i686-linux-gnu_15.2.0-10 gcc-i686-linux-gnu_4:15.2.0-4 gettext_0.23.2-1 gettext-base_0.23.2-1 grep_3.12-1 groff-base_1.23.0-10 gzip_1.13-1 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libgcc-s1_15.2.0-10 libgdbm-compat4t64_1.26-1 libgdbm6t64_1.26-1 libgfortran5_15.2.0-10 libgmp10_2:6.3.0+dfsg-5 libgnutls30t64_3.8.11-3 libgomp1_15.2.0-10 libgprofng0_2.45.50.20251201-1 libgssapi-krb5-2_1.22.1-2 libhdf5-310_1.14.5+repack-4 libhdf5-hl-310_1.14.5+repack-4 libhogweed6t64_3.10.2-1 libidn2-0_2.3.8-4 libisl23_0.27-1 libitm1_15.2.0-10 libjansson4_2.14-2+b3 libjs-mathjax_2.7.9+dfsg-1 libjs-sphinxdoc_8.2.3-11 libjson-perl_4.10000-1 libk5crypto3_1.22.1-2 libkeyutils1_1.6.3-6 libkrb5-3_1.22.1-2 libkrb5support0_1.22.1-2 liblapack3_3.12.1-7 libldap2_2.6.10+dfsg-1 liblz4-1_1.10.0-6 liblzma5_5.8.1-2 liblzo2-2_2.10-3+b1 libmagic-mgc_1:5.46-5 libmagic1t64_1:5.46-5 libmd0_1.1.0-2+b1 libmount1_2.41.2-4 libmpc3_1.3.1-2 libmpfr6_4.2.2-2 libncursesw6_6.5+20251123-1 libnetcdf22_1:4.9.3-1+b1 libnettle8t64_3.10.2-1 libnghttp2-14_1.64.0-1.1+b1 libnghttp3-9_1.12.0-1 libngtcp2-16_1.16.0-1 libngtcp2-crypto-gnutls8_1.16.0-1 libngtcp2-crypto-ossl0_1.16.0-1 libnorm1t64_1.5.9+dfsg-4 libp11-kit0_0.25.10-1 libpam-modules_1.7.0-5 libpam-modules-bin_1.7.0-5 libpam-runtime_1.7.0-5 libpam0g_1.7.0-5 libpcre2-8-0_10.46-1 libperl5.40_5.40.1-7 libpgm-5.3-0t64_5.3.128~dfsg-2.1+b1 libpipeline1_1.5.8-2 libpsl5t64_0.21.2-1.1+b1 libpython3-all-dev_3.13.9-2 libpython3-dev_3.13.9-2 libpython3-stdlib_3.13.9-2 libpython3.13_3.13.11-1+b1 libpython3.13-dev_3.13.11-1+b1 libpython3.13-minimal_3.13.11-1+b1 libpython3.13-stdlib_3.13.11-1+b1 libpython3.14_3.14.2-1+b1 libpython3.14-dev_3.14.2-1+b1 libpython3.14-minimal_3.14.2-1+b1 libpython3.14-stdlib_3.14.2-1+b1 libqhull-r8.0_2020.2-7 libquadmath0_15.2.0-10 libreadline8t64_8.3-3 librtmp1_2.4+20151223.gitfa8646d.1-3 libsasl2-2_2.1.28+dfsg1-10 libsasl2-modules-db_2.1.28+dfsg1-10 libseccomp2_2.6.0-2+b1 libselinux1_3.9-4+b1 libsframe2_2.45.50.20251201-1 libsmartcols1_2.41.2-4 libsnappy1v5_1.2.2-2 libsodium23_1.0.18-1+b2 libsqlite3-0_3.46.1-8 libssh2-1t64_1.11.1-1 libssl3t64_3.5.4-1 libstdc++-15-dev_15.2.0-10 libstdc++6_15.2.0-10 libsystemd0_259~rc2-1 libsz2_1.1.4-2 libtasn1-6_4.20.0-2 libtinfo6_6.5+20251123-1 libtool_2.5.4-9 libubsan1_15.2.0-10 libuchardet0_0.0.8-2 libudev1_259~rc2-1 libunistring5_1.3-2 libuuid1_2.41.2-4 libxml2-16_2.15.1+dfsg-2+b1 libxxhash0_0.8.3-2 libzmq5_4.3.5-1+b3 libzstd1_1.5.7+dfsg-2 linux-libc-dev_6.17.10-1 m4_1.4.20-2 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20250131-1 media-types_14.0.0 ncurses-base_6.5+20251123-1 ncurses-bin_6.5+20251123-1 netbase_6.5 openssl_3.5.4-1 openssl-provider-legacy_3.5.4-1 patch_2.8-2 perl_5.40.1-7 perl-base_5.40.1-7 perl-modules-5.40_5.40.1-7 po-debconf_1.0.22 pybuild-plugin-pyproject_6.20251204.1 python-babel-localedata_2.17.0-2 python-tables-data_3.10.2-3 python-tinycss2-common_1.4.0-2 python3_3.13.9-2 python3-alabaster_0.7.16-0.1 python3-all_3.13.9-2 python3-all-dev_3.13.9-2 python3-attr_25.4.0-1 python3-autocommand_2.2.2-3 python3-babel_2.17.0-2 python3-bleach_6.3.0-1 python3-bs4_4.14.3-1 python3-build_1.2.2-4 python3-certifi_2025.11.12+ds-1 python3-cffi-backend_2.0.0-2+b1 python3-cftime_1.6.5-1+b1 python3-chardet_5.2.0+dfsg-2 python3-charset-normalizer_3.4.4-2 python3-cpuinfo_9.0.0+git20221119-3 python3-dateutil_2.9.0-4 python3-decorator_5.2.1-2 python3-defusedxml_0.7.1-3 python3-dev_3.13.9-2 python3-docutils_0.22.3+dfsg-1 python3-fastjsonschema_2.21.1-1 python3-gsd_4.2.0-1 python3-html5lib_1.2-2 python3-idna_3.10-1 python3-imagesize_1.4.1-1 python3-inflect_7.5.0-1 python3-iniconfig_2.1.0-1 python3-installer_0.7.0+dfsg1-3 python3-jaraco.context_6.0.1-1 python3-jaraco.functools_4.1.0-1 python3-jaraco.text_4.0.0-1 python3-jinja2_3.1.6-1 python3-jsonschema_4.25.1-2 python3-jsonschema-specifications_2023.12.1-4 python3-jupyter-client_8.6.3-3 python3-jupyter-core_5.7.2-5 python3-jupyterlab-pygments_0.2.2-3 python3-markupsafe_3.0.3-1+b1 python3-minimal_3.13.9-2 python3-mistune_3.1.4-1 python3-more-itertools_10.8.0-1 python3-nbclient_0.8.0-3 python3-nbconvert_7.16.6-1 python3-nbformat_5.9.1-1 python3-nbsphinx_0.9.5+ds-1 python3-netcdf4_1.7.3-1+b1 python3-networkx_3.4.2-4 python3-numexpr_2.14.1-1+b1 python3-numpy_1:2.3.5+ds-2+b1 python3-numpy-dev_1:2.3.5+ds-2+b1 python3-packaging_25.0-1 python3-pandas_2.3.3+dfsg-3 python3-pandas-lib_2.3.3+dfsg-3 python3-pandocfilters_1.5.1-1 python3-pkg-resources_78.1.1-0.1 python3-platformdirs_4.4.0-1 python3-pluggy_1.6.0-1 python3-psutil_7.1.0-1 python3-pygments_2.18.0+dfsg-2 python3-pyparsing_3.1.3-1 python3-pyproject-hooks_1.2.0-1 python3-pytest_8.4.2-1 python3-pytest-rerunfailures_16.1-1 python3-pytz_2025.2-5 python3-referencing_0.36.2-2 python3-requests_2.32.5+dfsg-1 python3-roman-numerals_3.1.0-2 python3-rpds-py_0.28.0-1 python3-scipy_1.16.3-2 python3-setuptools_78.1.1-0.1 python3-snowballstemmer_3.0.1-1 python3-soupsieve_2.7-2 python3-sphinx_8.2.3-11 python3-tables_3.10.2-3 python3-tables-lib_3.10.2-3+b1 python3-tinycss2_1.4.0-2 python3-tornado_6.5.2-3 python3-traitlets_5.14.3+really5.14.3-2 python3-typeguard_4.4.4-1 python3-typing-extensions_4.15.0-1 python3-urllib3_2.5.0-1 python3-versioneer_0.29-1 python3-webencodings_0.5.1-5 python3-wheel_0.46.1-2 python3-zipp_3.23.0-1 python3-zmq_27.1.0-1+b1 python3.13_3.13.11-1+b1 python3.13-dev_3.13.11-1+b1 python3.13-minimal_3.13.11-1+b1 python3.14_3.14.2-1+b1 python3.14-dev_3.14.2-1+b1 python3.14-minimal_3.14.2-1+b1 readline-common_8.3-3 rpcsvc-proto_1.4.3-1 sed_4.9-2 sensible-utils_0.0.26 sgml-base_1.31+nmu1 sphinx-common_8.2.3-11 sysvinit-utils_3.15-6 tar_1.35+dfsg-3.1 tzdata_2025b-5 util-linux_2.41.2-4 xml-core_0.19 xz-utils_5.8.1-2 zlib1g_1:1.3.dfsg+really1.3.1-1+b1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1+b1 +------------------------------------------------------------------------------+ | Build Sun, 14 Dec 2025 08:10:47 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: mdtraj Binary: python3-mdtraj, python-mdtraj-doc Architecture: any-amd64 arm64 i386 all Version: 1.11.0-2 Maintainer: Debichem Team Uploaders: Drew Parsons Homepage: https://mdtraj.org/ Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/debichem-team/mdtraj Vcs-Git: https://salsa.debian.org/debichem-team/mdtraj.git Testsuite: autopkgtest Testsuite-Triggers: python3-gsd, python3-ipykernel, python3-jupyter-client, python3-matplotlib, python3-nbformat, python3-netcdf4, python3-packaging, python3-pandas, python3-pytest, python3-pytest-rerunfailures, python3-sklearn Build-Depends: debhelper-compat (= 13), dh-sequence-python3, dh-sequence-numpy3, pybuild-plugin-pyproject, cython3, python3-setuptools, python3-all-dev, python3-gsd, python3-numpy (>= 2.0.0~), python3-scipy, python3-nbsphinx, python3-netcdf4, python3-networkx, python3-packaging , python3-pandas, python3-pyparsing, python3-pytest , python3-pytest-rerunfailures , python3-sphinx, python3-tables, python3-versioneer, libjs-mathjax Build-Depends-Indep: pandoc, python3-msmb-theme, python3-ipykernel, python3-jupyter-client, python3-matplotlib, python3-nbconvert, python3-nbformat, python3-numpydoc, python3-sklearn Package-List: python-mdtraj-doc deb doc optional arch=all python3-mdtraj deb python optional arch=any-amd64,arm64,i386 Checksums-Sha1: 21e669632e858df798f129cfeb9a9a3d31ccb394 22723159 mdtraj_1.11.0.orig.tar.gz 1e7c8a8c72f088799169256b68f1b3a852e48867 300368 mdtraj_1.11.0-2.debian.tar.xz Checksums-Sha256: fefca787f882d0716a7aeb01b4d8e30caddbd2be0b2893acfa7201c31d13c786 22723159 mdtraj_1.11.0.orig.tar.gz 8553fdf5130d41f5881b2c8cc7d509e3b3b2a9c05699998bafdb905550db2a15 300368 mdtraj_1.11.0-2.debian.tar.xz Files: 7ad9ab16d7cbca7b7aee5e88ff440586 22723159 mdtraj_1.11.0.orig.tar.gz 9b7162ed8040c2b3cdc7f3cca4780460 300368 mdtraj_1.11.0-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEI8mpPlhYGekSbQo2Vz7x5L1aAfoFAmj/YuIACgkQVz7x5L1a AfoqFw//UY2dliAF2dJx9lqE2dFYfskQzXrdT9JUe3WMrwXh5qfnE+kujrwR9LFK AYQ6r9JwToIOR4eA5xdkf524OEoMjMZS+hbPl9eXdQ/2a10fqwFTskSYsvj2EiC5 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docs_use_local_mathjax.patch dpkg-source: info: applying build_dir_pybuild.patch dpkg-source: info: applying python_hashbang.patch dpkg-source: info: applying 32bit_skip_image_molecule.patch dpkg-source: info: applying test_relax_tol.patch dpkg-source: info: applying rename-mdconvert-mdtraj.patch dpkg-source: info: applying drop_notebook_in_docs.patch dpkg-source: info: applying test_increase_timeout.patch dpkg-source: info: applying openmm_version_skip.patch Check disk space ---------------- Sufficient free space for build Hack binNMU version ------------------- Created changelog entry for binNMU version 1.11.0-2+b1 User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=6 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 LOGNAME=sbuild PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SHELL=/bin/sh SOURCE_DATE_EPOCH=1765292289 USER=sbuild dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -B dpkg-buildpackage: info: source package mdtraj dpkg-buildpackage: info: source version 1.11.0-2+b1 dpkg-buildpackage: info: source distribution sid dpkg-buildpackage: info: source changed by all / amd64 / i386 Build Daemon (x86-conova-02) dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 dpkg-source: info: using options from mdtraj-1.11.0/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with sphinxdoc --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild pybuild --clean -i python{version} -p "3.14 3.13" rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/mdtraj-1.11.0' for f in mdtraj/formats/binpos/binpos.c \ mdtraj/formats/dcd/dcd.c \ mdtraj/formats/dtr/dtr.cpp \ mdtraj/formats/tng/tng.c \ mdtraj/formats/xtc/trr.c \ mdtraj/formats/xtc/xtc.c \ mdtraj/geometry/drid.cpp \ mdtraj/geometry/neighborlist.cpp \ mdtraj/geometry/neighbors.cpp \ mdtraj/geometry/src/_geometry.cpp \ mdtraj/rmsd/_lprmsd.cpp \ mdtraj/rmsd/_rmsd.cpp \ mdtraj/version.py; \ do rm -f $f; done rm -rf mdtraj/core/lib rm -rf docs/api/generated rm -rf __pycache__ .pybuild find . -name "lib*.a" -delete make[1]: Leaving directory '/build/reproducible-path/mdtraj-1.11.0' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/python3-mdtraj.substvars debian/python-mdtraj-doc.substvars debian/files rm -fr -- debian/python3-mdtraj/ debian/tmp/ debian/python-mdtraj-doc/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary-arch dh binary-arch --with sphinxdoc --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild dh_auto_configure -a -O--buildsystem=pybuild pybuild --configure -i python{version} -p "3.14 3.13" dh_auto_build -a -O--buildsystem=pybuild pybuild --build -i python{version} -p "3.14 3.13" I: pybuild plugin_pyproject:131: Building wheel for python3.14 with "build" module I: pybuild base:317: python3.14 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/mdtraj-1.11.0/.pybuild/cpython3_3.14_mdtraj * Building wheel... Using built-in specs. COLLECT_GCC=/usr/bin/i686-linux-gnu-gcc COLLECT_LTO_WRAPPER=/usr/libexec/gcc/i686-linux-gnu/15/lto-wrapper Target: i686-linux-gnu Configured with: ../src/configure -v --with-pkgversion='Debian 15.2.0-10' --with-bugurl=file:///usr/share/doc/gcc-15/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust,algol68 --prefix=/usr --with-gcc-major-version-only --program-suffix=-15 --program-prefix=i686-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-targets=all --enable-multiarch --disable-werror --with-arch-32=i686 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-checking=release --build=i686-linux-gnu --host=i686-linux-gnu --target=i686-linux-gnu Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 15.2.0 (Debian 15.2.0-10) warning: mdtraj/formats/dcd/dcdlib.pxd:12:12: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: mdtraj/formats/dcd/dcdlib.pxd:12:16: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: mdtraj/formats/dcd/dcdlib.pxd:12:20: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. performance hint: mdtraj/geometry/src/image_molecules.pxi:15:0: Exception check on 'make_whole' will always require the GIL to be acquired. Possible solutions: 1. Declare 'make_whole' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions. 2. Use an 'int' return type on 'make_whole' to allow an error code to be returned. performance hint: mdtraj/geometry/src/image_molecules.pxi:36:0: Exception check on 'anchor_dists' will always require the GIL to be acquired. Possible solutions: 1. Declare 'anchor_dists' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions. 2. Use an 'int' return type on 'anchor_dists' to allow an error code to be returned. performance hint: mdtraj/geometry/src/image_molecules.pxi:68:0: Exception check on 'wrap_mols' will always require the GIL to be acquired. Possible solutions: 1. Declare 'wrap_mols' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions. 2. Use an 'int' return type on 'wrap_mols' to allow an error code to be returned. C compiler: Attempting to autodetect OpenMP support... Compiler supports OpenMP Attempting to autodetect SSE2 support... Compiler supports SSE2 Attempting to autodetect SSE3 support... Compiler supports SSE3 Attempting to autodetect SSE4.1 support... Compiler supports SSE4.1 Attempting to autodetect NEON support... Did not detect NEON support [ 1/10] Cythonizing mdtraj/formats/dcd/dcd.pyx [ 2/10] Cythonizing mdtraj/formats/dtr/dtr.pyx [ 3/10] Cythonizing mdtraj/formats/xtc/trr.pyx [ 4/10] Cythonizing mdtraj/formats/xtc/xtc.pyx [ 5/10] Cythonizing mdtraj/geometry/drid.pyx [ 6/10] Cythonizing mdtraj/geometry/neighborlist.pyx [ 7/10] Cythonizing mdtraj/geometry/neighbors.pyx [ 8/10] Cythonizing mdtraj/geometry/src/_geometry.pyx [ 9/10] Cythonizing mdtraj/rmsd/_lprmsd.pyx [10/10] Cythonizing mdtraj/rmsd/_rmsd.pyx /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: GNU Lesser General Public License v2 or later (LGPLv2+) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running bdist_wheel running build running build_py creating build/lib.linux-i686-cpython-314/mdtraj copying mdtraj/io.py -> build/lib.linux-i686-cpython-314/mdtraj copying mdtraj/_version.py -> build/lib.linux-i686-cpython-314/mdtraj copying mdtraj/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj creating build/lib.linux-i686-cpython-314/mdtraj/reporters copying mdtraj/reporters/xtcreporter.py -> build/lib.linux-i686-cpython-314/mdtraj/reporters copying mdtraj/reporters/dcdreporter.py -> build/lib.linux-i686-cpython-314/mdtraj/reporters copying mdtraj/reporters/hdf5reporter.py -> build/lib.linux-i686-cpython-314/mdtraj/reporters copying mdtraj/reporters/netcdfreporter.py -> build/lib.linux-i686-cpython-314/mdtraj/reporters copying mdtraj/reporters/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/reporters copying mdtraj/reporters/basereporter.py -> build/lib.linux-i686-cpython-314/mdtraj/reporters creating build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/dssp.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/thermodynamic_properties.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/angle.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/rdf.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/order.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/internal.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/rg.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/alignment.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/shape.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/contact.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/sasa.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/dihedral.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/pi_stacking.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/hbond.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry copying mdtraj/geometry/distance.py -> build/lib.linux-i686-cpython-314/mdtraj/geometry creating build/lib.linux-i686-cpython-314/mdtraj/utils copying mdtraj/utils/delay_import.py -> build/lib.linux-i686-cpython-314/mdtraj/utils copying mdtraj/utils/unitcell.py -> build/lib.linux-i686-cpython-314/mdtraj/utils copying mdtraj/utils/zipped.py -> build/lib.linux-i686-cpython-314/mdtraj/utils copying mdtraj/utils/singleton.py -> build/lib.linux-i686-cpython-314/mdtraj/utils copying mdtraj/utils/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/utils copying mdtraj/utils/contextmanagers.py -> build/lib.linux-i686-cpython-314/mdtraj/utils copying mdtraj/utils/validation.py -> build/lib.linux-i686-cpython-314/mdtraj/utils copying mdtraj/utils/rotation.py -> build/lib.linux-i686-cpython-314/mdtraj/utils creating build/lib.linux-i686-cpython-314/mdtraj/nmr copying mdtraj/nmr/scalar_couplings.py -> build/lib.linux-i686-cpython-314/mdtraj/nmr copying mdtraj/nmr/shift_wrappers.py -> build/lib.linux-i686-cpython-314/mdtraj/nmr copying mdtraj/nmr/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/nmr creating build/lib.linux-i686-cpython-314/mdtraj/scripts copying mdtraj/scripts/mdinspect.py -> build/lib.linux-i686-cpython-314/mdtraj/scripts copying mdtraj/scripts/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/scripts copying mdtraj/scripts/mdconvert.py -> build/lib.linux-i686-cpython-314/mdtraj/scripts creating build/lib.linux-i686-cpython-314/mdtraj/testing copying mdtraj/testing/testing.py -> build/lib.linux-i686-cpython-314/mdtraj/testing copying mdtraj/testing/docstrings.py -> build/lib.linux-i686-cpython-314/mdtraj/testing copying mdtraj/testing/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/testing copying mdtraj/testing/docscrape.py -> build/lib.linux-i686-cpython-314/mdtraj/testing creating build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/arc.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/xyzfile.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/openmmxml.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/gro.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/lammpstrj.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/hoomdxml.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/mdcrd.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/prmtop.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/psf.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/amberrst.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/registry.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/gsd.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/hdf5.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/netcdf.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/mol2.py -> build/lib.linux-i686-cpython-314/mdtraj/formats copying mdtraj/formats/lh5.py -> build/lib.linux-i686-cpython-314/mdtraj/formats creating build/lib.linux-i686-cpython-314/mdtraj/core copying mdtraj/core/trajectory.py -> build/lib.linux-i686-cpython-314/mdtraj/core copying mdtraj/core/element.py -> build/lib.linux-i686-cpython-314/mdtraj/core copying mdtraj/core/topology.py -> build/lib.linux-i686-cpython-314/mdtraj/core copying mdtraj/core/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/core copying mdtraj/core/selection.py -> build/lib.linux-i686-cpython-314/mdtraj/core copying mdtraj/core/residue_names.py -> build/lib.linux-i686-cpython-314/mdtraj/core creating build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/unit_definitions.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/constants.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/unit.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/doctests.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/quantity.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/mymatrix.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/unit_operators.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/prefix.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/basedimension.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/unit_math.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/baseunit.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit copying mdtraj/utils/unit/standard_dimensions.py -> build/lib.linux-i686-cpython-314/mdtraj/utils/unit creating build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/PdbxReader.py -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/PdbxContainers.py -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/pdbx.py -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/pdbxfile.py -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx creating build/lib.linux-i686-cpython-314/mdtraj/formats/pdb copying mdtraj/formats/pdb/pdbfile.py -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdb copying mdtraj/formats/pdb/pdbstructure.py -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdb copying mdtraj/formats/pdb/__init__.py -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdb creating build/lib.linux-i686-cpython-314/mdtraj/formats/pdb/data copying mdtraj/formats/pdb/data/residues.xml -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdb/data copying mdtraj/formats/pdb/data/pdbNames.xml -> build/lib.linux-i686-cpython-314/mdtraj/formats/pdb/data UPDATING build/lib.linux-i686-cpython-314/mdtraj/_version.py set build/lib.linux-i686-cpython-314/mdtraj/_version.py to '1.11.0' running build_ext building 'mdtraj.formats.xtc' extension creating build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/xtc/src/xdr_seek.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdr_seek.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/xtc/src/xdrfile.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdrfile.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/xtc/src/xdrfile_xtc.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdrfile_xtc.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/xtc/xtc.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/xtc.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdr_seek.o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdrfile.o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdrfile_xtc.o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/xtc.o -L/usr/lib/i386-linux-gnu -o build/lib.linux-i686-cpython-314/mdtraj/formats/xtc.cpython-314-i386-linux-gnu.so building 'mdtraj.formats.trr' extension i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/xtc/src/xdr_seek.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdr_seek.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/xtc/src/xdrfile.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdrfile.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/xtc/src/xdrfile_trr.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdrfile_trr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/xtc/trr.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/trr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdr_seek.o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdrfile.o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/src/xdrfile_trr.o build/temp.linux-i686-cpython-314/mdtraj/formats/xtc/trr.o -L/usr/lib/i386-linux-gnu -o build/lib.linux-i686-cpython-314/mdtraj/formats/trr.cpython-314-i386-linux-gnu.so building 'mdtraj.formats.dcd' extension creating build/temp.linux-i686-cpython-314/mdtraj/formats/dcd creating build/temp.linux-i686-cpython-314/mdtraj/formats/dcd/src i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/dcd -Imdtraj/formats/dcd/include/ -Imdtraj/formats/dcd/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/dcd/dcd.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/dcd/dcd.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/dcd -Imdtraj/formats/dcd/include/ -Imdtraj/formats/dcd/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/dcd/src/dcdplugin.c -o build/temp.linux-i686-cpython-314/mdtraj/formats/dcd/src/dcdplugin.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare mdtraj/formats/dcd/src/dcdplugin.c: In function ‘open_dcd_read’: mdtraj/formats/dcd/src/dcdplugin.c:903:14: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘fio_size_t’ {aka ‘long long int’} [-Wformat=] 903 | printf("dcdplugin) Warning: DCD header claims %d frames, but \n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 906 | dcd->nsets, trjsize, newnsets, framesize); | ~~~~~~~ | | | fio_size_t {aka long long int} mdtraj/formats/dcd/src/dcdplugin.c:904:39: note: format string is defined here 904 | "dcdplugin) file size (%ld) indicates there are actually \n" | ~~^ | | | long int | %lld mdtraj/formats/dcd/src/dcdplugin.c:903:14: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 5 has type ‘fio_size_t’ {aka ‘long long int’} [-Wformat=] 903 | printf("dcdplugin) Warning: DCD header claims %d frames, but \n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 906 | dcd->nsets, trjsize, newnsets, framesize); | ~~~~~~~~~ | | | fio_size_t {aka long long int} mdtraj/formats/dcd/src/dcdplugin.c:905:36: note: format string is defined here 905 | "%d frames of size (%ld)\n", | ~~^ | | | long int | %lld i686-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/formats/dcd/dcd.o build/temp.linux-i686-cpython-314/mdtraj/formats/dcd/src/dcdplugin.o -L/usr/lib/i386-linux-gnu -o build/lib.linux-i686-cpython-314/mdtraj/formats/dcd.cpython-314-i386-linux-gnu.so building 'mdtraj.formats.dtr' extension creating build/temp.linux-i686-cpython-314/mdtraj/formats/dtr creating build/temp.linux-i686-cpython-314/mdtraj/formats/dtr/src i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DDESRES_READ_TIMESTEP2=1 -Imdtraj/formats/dtr -Imdtraj/formats/dtr/include/ -Imdtraj/formats/dtr/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/dtr/dtr.cpp -o build/temp.linux-i686-cpython-314/mdtraj/formats/dtr/dtr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DDESRES_READ_TIMESTEP2=1 -Imdtraj/formats/dtr -Imdtraj/formats/dtr/include/ -Imdtraj/formats/dtr/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/formats/dtr/src/dtrplugin.cxx -o build/temp.linux-i686-cpython-314/mdtraj/formats/dtr/src/dtrplugin.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare mdtraj/formats/dtr/src/dtrplugin.cxx: In member function ‘bool desres::molfile::Timekeys::init(const std::string&)’: mdtraj/formats/dtr/src/dtrplugin.cxx:486:64: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 486 | fprintf(stderr, "non-constant framesize at frame %ld\n", i); | ~~^ ~ | | | | | size_t {aka unsigned int} | long int | %d mdtraj/formats/dtr/src/dtrplugin.cxx:487:27: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 487 | printf("size %d framesize %d\n\n", | ~^ | | | int | %lld 488 | keys[i].size(), m_framesize); | ~~~~~~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx:487:40: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 487 | printf("size %d framesize %d\n\n", | ~^ | | | int | %lld 488 | keys[i].size(), m_framesize); | ~~~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx:494:60: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 494 | "non-constant time interval at frame %ld\n", i); | ~~^ ~ | | | | | size_t {aka unsigned int} | long int | %d mdtraj/formats/dtr/src/dtrplugin.cxx:499:60: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 499 | fprintf(stderr, "unexpected offset for frame %ld\n", i); | ~~^ ~ | | | | | size_t {aka unsigned int} | long int | %d mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘int handle_wrapped_v2({anonymous}::BlobMap&, uint32_t, bool, molfile_timestep_t*)’: mdtraj/formats/dtr/src/dtrplugin.cxx:1301:69: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 4 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 1301 | fprintf(stderr, "ERROR, Expected %d elements in POSITION; got %ld\n", | ~~^ | | | long int | %lld 1302 | 3*natoms, pos.count); | ~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx:1310:71: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 4 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 1310 | fprintf(stderr, "ERROR, Expected %d elements in VELOCITY; got %ld\n", | ~~^ | | | long int | %lld 1311 | 3*natoms, vel.count); | ~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘int handle_wrapped_v1({anonymous}::BlobMap&, uint32_t, bool, molfile_timestep_t*)’: mdtraj/formats/dtr/src/dtrplugin.cxx:1572:45: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 1572 | fprintf(stderr, "VELOCITY field has %ld values; expected %d\n", | ~~^ | | | long int | %lld 1573 | velblob.count, 3*natoms); | ~~~~~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘void DDmkdir(const std::string&, mode_t, int, int)’: mdtraj/formats/dtr/src/dtrplugin.cxx:706:23: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=] 706 | sprintf(sub, "%03x/", i); | ^~~~ mdtraj/formats/dtr/src/dtrplugin.cxx:706:22: note: directive argument in the range [0, 2147483646] 706 | sprintf(sub, "%03x/", i); | ^~~~~~~ In file included from /usr/include/stdio.h:970, from mdtraj/formats/dtr/include/molfile_plugin.h:35, from mdtraj/formats/dtr/include/dtrplugin.hxx:46, from mdtraj/formats/dtr/src/dtrplugin.cxx:42: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void DDmkdir(const std::string&, mode_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:706:9: /usr/include/i386-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10 bytes into a destination of size 6 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘void DDmkdir(const std::string&, mode_t, int, int)’: mdtraj/formats/dtr/src/dtrplugin.cxx:714:30: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=] 714 | sprintf(subsub, "%03x", j); | ^~~~ mdtraj/formats/dtr/src/dtrplugin.cxx:714:29: note: directive argument in the range [0, 2147483646] 714 | sprintf(subsub, "%03x", j); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void DDmkdir(const std::string&, mode_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:714:13: /usr/include/i386-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 4 and 9 bytes into a destination of size 6 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘std::string framefile(const std::string&, size_t, size_t, int, int)’: mdtraj/formats/dtr/src/dtrplugin.cxx:667:35: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 667 | sprintf(answer, "%03x/", d1); | ^ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘std::string DDreldir(const std::string&, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:667:13, inlined from ‘std::string framefile(const std::string&, size_t, size_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23: /usr/include/i386-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10 bytes into a destination of size 9 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘std::string framefile(const std::string&, size_t, size_t, int, int)’: mdtraj/formats/dtr/src/dtrplugin.cxx:665:35: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size between 0 and 5 [-Wformat-overflow=] 665 | sprintf(answer, "%03x/%03x/", d1, d2); | ^~~~ In function ‘std::string DDreldir(const std::string&, int, int)’, inlined from ‘std::string framefile(const std::string&, size_t, size_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23: mdtraj/formats/dtr/src/dtrplugin.cxx:665:29: note: directive argument in the range [0, 2147483646] 665 | sprintf(answer, "%03x/%03x/", d1, d2); | ^~~~~~~~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘std::string DDreldir(const std::string&, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:665:13, inlined from ‘std::string framefile(const std::string&, size_t, size_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23: /usr/include/i386-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 9 and 19 bytes into a destination of size 9 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/formats/dtr/dtr.o build/temp.linux-i686-cpython-314/mdtraj/formats/dtr/src/dtrplugin.o -L/usr/lib/i386-linux-gnu -o build/lib.linux-i686-cpython-314/mdtraj/formats/dtr.cpython-314-i386-linux-gnu.so building 'mdtraj._rmsd' extension creating build/temp.linux-i686-cpython-314/mdtraj/rmsd creating build/temp.linux-i686-cpython-314/mdtraj/rmsd/src i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/_rmsd.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/center.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/rotation.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/rotation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/theobald_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/rmsd/_rmsd.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/center.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/rotation.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/theobald_rmsd.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-314/mdtraj/_rmsd.cpython-314-i386-linux-gnu.so building 'mdtraj._lprmsd' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/_lprmsd.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/_lprmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/Munkres.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/Munkres.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/center.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/euclidean_permutation.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/euclidean_permutation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/fancy_index.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/fancy_index.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/rotation.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/rotation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/theobald_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/rmsd/_lprmsd.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/Munkres.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/center.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/euclidean_permutation.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/fancy_index.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/rotation.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/theobald_rmsd.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-314/mdtraj/_lprmsd.cpython-314-i386-linux-gnu.so building 'mdtraj.core.lib.libtheobald' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/theobald_rmsd.o -msse2 -mssse3 -O3 -funroll-loops --std=c++11 i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/center.o -msse2 -mssse3 -O3 -funroll-loops --std=c++11 i686-linux-gnu-gcc-ar rcs build/lib.linux-i686-cpython-314/mdtraj/core/lib/libtheobald.a build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/theobald_rmsd.o build/temp.linux-i686-cpython-314/mdtraj/rmsd/src/center.o building 'mdtraj.geometry._geometry' extension creating build/temp.linux-i686-cpython-314/mdtraj/geometry/src i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/src/_geometry.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/_geometry.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/src/dssp.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/dssp.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/src/geometry.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/geometry.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/src/sasa.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/sasa.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/geometry/src/_geometry.o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/dssp.o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/geometry.o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/sasa.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-314/mdtraj/geometry/_geometry.cpython-314-i386-linux-gnu.so building 'mdtraj.geometry.drid' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/drid.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/drid.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/src/dridkernels.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/dridkernels.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/src/moments.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/moments.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/geometry/drid.o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/dridkernels.o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/moments.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-314/mdtraj/geometry/drid.cpython-314-i386-linux-gnu.so building 'mdtraj.geometry.neighbors' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/neighbors.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/neighbors.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/src/neighbors.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/neighbors.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/geometry/neighbors.o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/neighbors.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-314/mdtraj/geometry/neighbors.cpython-314-i386-linux-gnu.so building 'mdtraj.geometry.neighborlist' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/neighborlist.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/neighborlist.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.14 -c mdtraj/geometry/src/neighborlist.cpp -o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/neighborlist.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-314/mdtraj/geometry/neighborlist.o build/temp.linux-i686-cpython-314/mdtraj/geometry/src/neighborlist.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-314/mdtraj/geometry/neighborlist.cpython-314-i386-linux-gnu.so installing to build/bdist.linux-i686/wheel running install running install_lib creating build/bdist.linux-i686/wheel creating build/bdist.linux-i686/wheel/mdtraj copying build/lib.linux-i686-cpython-314/mdtraj/io.py -> build/bdist.linux-i686/wheel/./mdtraj creating build/bdist.linux-i686/wheel/mdtraj/reporters copying build/lib.linux-i686-cpython-314/mdtraj/reporters/xtcreporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-314/mdtraj/reporters/dcdreporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-314/mdtraj/reporters/hdf5reporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-314/mdtraj/reporters/netcdfreporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-314/mdtraj/reporters/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-314/mdtraj/reporters/basereporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-314/mdtraj/_version.py -> build/bdist.linux-i686/wheel/./mdtraj creating build/bdist.linux-i686/wheel/mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/dssp.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/thermodynamic_properties.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/angle.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/rdf.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/order.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/drid.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/internal.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/rg.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/neighborlist.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/alignment.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/shape.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/neighbors.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/contact.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/sasa.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/dihedral.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/pi_stacking.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/hbond.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/distance.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-314/mdtraj/geometry/_geometry.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/geometry creating build/bdist.linux-i686/wheel/mdtraj/utils copying build/lib.linux-i686-cpython-314/mdtraj/utils/delay_import.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-314/mdtraj/utils/unitcell.py -> build/bdist.linux-i686/wheel/./mdtraj/utils creating build/bdist.linux-i686/wheel/mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/unit_definitions.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/constants.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/unit.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/doctests.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/quantity.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/mymatrix.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/unit_operators.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/prefix.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/basedimension.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/unit_math.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/baseunit.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/unit/standard_dimensions.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-314/mdtraj/utils/zipped.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-314/mdtraj/utils/singleton.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-314/mdtraj/utils/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-314/mdtraj/utils/contextmanagers.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-314/mdtraj/utils/validation.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-314/mdtraj/utils/rotation.py -> build/bdist.linux-i686/wheel/./mdtraj/utils creating build/bdist.linux-i686/wheel/mdtraj/nmr copying build/lib.linux-i686-cpython-314/mdtraj/nmr/scalar_couplings.py -> build/bdist.linux-i686/wheel/./mdtraj/nmr copying build/lib.linux-i686-cpython-314/mdtraj/nmr/shift_wrappers.py -> build/bdist.linux-i686/wheel/./mdtraj/nmr copying build/lib.linux-i686-cpython-314/mdtraj/nmr/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/nmr copying build/lib.linux-i686-cpython-314/mdtraj/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj creating build/bdist.linux-i686/wheel/mdtraj/scripts copying build/lib.linux-i686-cpython-314/mdtraj/scripts/mdinspect.py -> build/bdist.linux-i686/wheel/./mdtraj/scripts copying build/lib.linux-i686-cpython-314/mdtraj/scripts/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/scripts copying build/lib.linux-i686-cpython-314/mdtraj/scripts/mdconvert.py -> build/bdist.linux-i686/wheel/./mdtraj/scripts copying build/lib.linux-i686-cpython-314/mdtraj/_rmsd.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj creating build/bdist.linux-i686/wheel/mdtraj/testing copying build/lib.linux-i686-cpython-314/mdtraj/testing/testing.py -> build/bdist.linux-i686/wheel/./mdtraj/testing copying build/lib.linux-i686-cpython-314/mdtraj/testing/docstrings.py -> build/bdist.linux-i686/wheel/./mdtraj/testing copying build/lib.linux-i686-cpython-314/mdtraj/testing/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/testing copying build/lib.linux-i686-cpython-314/mdtraj/testing/docscrape.py -> build/bdist.linux-i686/wheel/./mdtraj/testing creating build/bdist.linux-i686/wheel/mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/arc.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/xyzfile.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/openmmxml.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/gro.py -> build/bdist.linux-i686/wheel/./mdtraj/formats creating build/bdist.linux-i686/wheel/mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx/PdbxReader.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx/PdbxContainers.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx/pdbx.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdbx/pdbxfile.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-314/mdtraj/formats/lammpstrj.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/hoomdxml.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/mdcrd.py -> build/bdist.linux-i686/wheel/./mdtraj/formats creating build/bdist.linux-i686/wheel/mdtraj/formats/pdb copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdb/pdbfile.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb creating build/bdist.linux-i686/wheel/mdtraj/formats/pdb/data copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdb/data/residues.xml -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb/data copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdb/data/pdbNames.xml -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb/data copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdb/pdbstructure.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb copying build/lib.linux-i686-cpython-314/mdtraj/formats/pdb/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb copying build/lib.linux-i686-cpython-314/mdtraj/formats/prmtop.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/psf.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/amberrst.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/dtr.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/trr.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/registry.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/gsd.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/hdf5.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/dcd.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/netcdf.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/mol2.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/lh5.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-314/mdtraj/formats/xtc.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/formats creating build/bdist.linux-i686/wheel/mdtraj/core copying build/lib.linux-i686-cpython-314/mdtraj/core/trajectory.py -> build/bdist.linux-i686/wheel/./mdtraj/core creating build/bdist.linux-i686/wheel/mdtraj/core/lib copying build/lib.linux-i686-cpython-314/mdtraj/core/lib/theobald_rmsd.h -> build/bdist.linux-i686/wheel/./mdtraj/core/lib copying build/lib.linux-i686-cpython-314/mdtraj/core/lib/libtheobald.a -> build/bdist.linux-i686/wheel/./mdtraj/core/lib copying build/lib.linux-i686-cpython-314/mdtraj/core/lib/center.h -> build/bdist.linux-i686/wheel/./mdtraj/core/lib copying build/lib.linux-i686-cpython-314/mdtraj/core/element.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-314/mdtraj/core/topology.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-314/mdtraj/core/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-314/mdtraj/core/selection.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-314/mdtraj/core/residue_names.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-314/mdtraj/_lprmsd.cpython-314-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj running install_egg_info running egg_info creating mdtraj.egg-info writing mdtraj.egg-info/PKG-INFO writing dependency_links to mdtraj.egg-info/dependency_links.txt writing entry points to mdtraj.egg-info/entry_points.txt writing requirements to mdtraj.egg-info/requires.txt writing top-level names to mdtraj.egg-info/top_level.txt writing manifest file 'mdtraj.egg-info/SOURCES.txt' dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative reading manifest file 'mdtraj.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching '__pycache__' no previously-included directories found matching '*.pyc' adding license file 'LICENSE' writing manifest file 'mdtraj.egg-info/SOURCES.txt' Copying mdtraj.egg-info to build/bdist.linux-i686/wheel/./mdtraj-1.11.0.egg-info running install_scripts creating build/bdist.linux-i686/wheel/mdtraj-1.11.0.dist-info/WHEEL creating '/build/reproducible-path/mdtraj-1.11.0/.pybuild/cpython3_3.14_mdtraj/.tmp-qn1a4xyz/mdtraj-1.11.0-cp314-cp314-linux_i686.whl' and adding 'build/bdist.linux-i686/wheel' to it adding 'mdtraj/__init__.py' adding 'mdtraj/_lprmsd.cpython-314-i386-linux-gnu.so' adding 'mdtraj/_rmsd.cpython-314-i386-linux-gnu.so' adding 'mdtraj/_version.py' adding 'mdtraj/io.py' adding 'mdtraj/core/__init__.py' adding 'mdtraj/core/element.py' adding 'mdtraj/core/residue_names.py' adding 'mdtraj/core/selection.py' adding 'mdtraj/core/topology.py' adding 'mdtraj/core/trajectory.py' adding 'mdtraj/core/lib/center.h' adding 'mdtraj/core/lib/libtheobald.a' adding 'mdtraj/core/lib/theobald_rmsd.h' adding 'mdtraj/formats/__init__.py' adding 'mdtraj/formats/amberrst.py' adding 'mdtraj/formats/arc.py' adding 'mdtraj/formats/dcd.cpython-314-i386-linux-gnu.so' adding 'mdtraj/formats/dtr.cpython-314-i386-linux-gnu.so' adding 'mdtraj/formats/gro.py' adding 'mdtraj/formats/gsd.py' adding 'mdtraj/formats/hdf5.py' adding 'mdtraj/formats/hoomdxml.py' adding 'mdtraj/formats/lammpstrj.py' adding 'mdtraj/formats/lh5.py' adding 'mdtraj/formats/mdcrd.py' adding 'mdtraj/formats/mol2.py' adding 'mdtraj/formats/netcdf.py' adding 'mdtraj/formats/openmmxml.py' adding 'mdtraj/formats/prmtop.py' adding 'mdtraj/formats/psf.py' adding 'mdtraj/formats/registry.py' adding 'mdtraj/formats/trr.cpython-314-i386-linux-gnu.so' adding 'mdtraj/formats/xtc.cpython-314-i386-linux-gnu.so' adding 'mdtraj/formats/xyzfile.py' adding 'mdtraj/formats/pdb/__init__.py' adding 'mdtraj/formats/pdb/pdbfile.py' adding 'mdtraj/formats/pdb/pdbstructure.py' adding 'mdtraj/formats/pdb/data/pdbNames.xml' adding 'mdtraj/formats/pdb/data/residues.xml' adding 'mdtraj/formats/pdbx/PdbxContainers.py' adding 'mdtraj/formats/pdbx/PdbxReader.py' adding 'mdtraj/formats/pdbx/__init__.py' adding 'mdtraj/formats/pdbx/pdbx.py' adding 'mdtraj/formats/pdbx/pdbxfile.py' adding 'mdtraj/geometry/__init__.py' adding 'mdtraj/geometry/_geometry.cpython-314-i386-linux-gnu.so' adding 'mdtraj/geometry/alignment.py' adding 'mdtraj/geometry/angle.py' adding 'mdtraj/geometry/contact.py' adding 'mdtraj/geometry/dihedral.py' adding 'mdtraj/geometry/distance.py' adding 'mdtraj/geometry/drid.cpython-314-i386-linux-gnu.so' adding 'mdtraj/geometry/dssp.py' adding 'mdtraj/geometry/hbond.py' adding 'mdtraj/geometry/internal.py' adding 'mdtraj/geometry/neighborlist.cpython-314-i386-linux-gnu.so' adding 'mdtraj/geometry/neighbors.cpython-314-i386-linux-gnu.so' adding 'mdtraj/geometry/order.py' adding 'mdtraj/geometry/pi_stacking.py' adding 'mdtraj/geometry/rdf.py' adding 'mdtraj/geometry/rg.py' adding 'mdtraj/geometry/sasa.py' adding 'mdtraj/geometry/shape.py' adding 'mdtraj/geometry/thermodynamic_properties.py' adding 'mdtraj/nmr/__init__.py' adding 'mdtraj/nmr/scalar_couplings.py' adding 'mdtraj/nmr/shift_wrappers.py' adding 'mdtraj/reporters/__init__.py' adding 'mdtraj/reporters/basereporter.py' adding 'mdtraj/reporters/dcdreporter.py' adding 'mdtraj/reporters/hdf5reporter.py' adding 'mdtraj/reporters/netcdfreporter.py' adding 'mdtraj/reporters/xtcreporter.py' adding 'mdtraj/scripts/__init__.py' adding 'mdtraj/scripts/mdconvert.py' adding 'mdtraj/scripts/mdinspect.py' adding 'mdtraj/testing/__init__.py' adding 'mdtraj/testing/docscrape.py' adding 'mdtraj/testing/docstrings.py' adding 'mdtraj/testing/testing.py' adding 'mdtraj/utils/__init__.py' adding 'mdtraj/utils/contextmanagers.py' adding 'mdtraj/utils/delay_import.py' adding 'mdtraj/utils/rotation.py' adding 'mdtraj/utils/singleton.py' adding 'mdtraj/utils/unitcell.py' adding 'mdtraj/utils/validation.py' adding 'mdtraj/utils/zipped.py' adding 'mdtraj/utils/unit/__init__.py' adding 'mdtraj/utils/unit/basedimension.py' adding 'mdtraj/utils/unit/baseunit.py' adding 'mdtraj/utils/unit/constants.py' adding 'mdtraj/utils/unit/doctests.py' adding 'mdtraj/utils/unit/mymatrix.py' adding 'mdtraj/utils/unit/prefix.py' adding 'mdtraj/utils/unit/quantity.py' adding 'mdtraj/utils/unit/standard_dimensions.py' adding 'mdtraj/utils/unit/unit.py' adding 'mdtraj/utils/unit/unit_definitions.py' adding 'mdtraj/utils/unit/unit_math.py' adding 'mdtraj/utils/unit/unit_operators.py' adding 'mdtraj-1.11.0.dist-info/licenses/LICENSE' adding 'mdtraj-1.11.0.dist-info/METADATA' adding 'mdtraj-1.11.0.dist-info/WHEEL' adding 'mdtraj-1.11.0.dist-info/entry_points.txt' adding 'mdtraj-1.11.0.dist-info/top_level.txt' adding 'mdtraj-1.11.0.dist-info/RECORD' removing build/bdist.linux-i686/wheel Successfully built mdtraj-1.11.0-cp314-cp314-linux_i686.whl I: pybuild plugin_pyproject:155: Unpacking wheel built for python3.14 with "installer" module I: pybuild plugin_pyproject:131: Building wheel for python3.13 with "build" module I: pybuild base:317: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/mdtraj-1.11.0/.pybuild/cpython3_3.13_mdtraj * Building wheel... Using built-in specs. COLLECT_GCC=/usr/bin/i686-linux-gnu-gcc COLLECT_LTO_WRAPPER=/usr/libexec/gcc/i686-linux-gnu/15/lto-wrapper Target: i686-linux-gnu Configured with: ../src/configure -v --with-pkgversion='Debian 15.2.0-10' --with-bugurl=file:///usr/share/doc/gcc-15/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust,algol68 --prefix=/usr --with-gcc-major-version-only --program-suffix=-15 --program-prefix=i686-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-targets=all --enable-multiarch --disable-werror --with-arch-32=i686 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-checking=release --build=i686-linux-gnu --host=i686-linux-gnu --target=i686-linux-gnu Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 15.2.0 (Debian 15.2.0-10) warning: mdtraj/formats/dcd/dcdlib.pxd:12:12: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: mdtraj/formats/dcd/dcdlib.pxd:12:16: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: mdtraj/formats/dcd/dcdlib.pxd:12:20: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. performance hint: mdtraj/geometry/src/image_molecules.pxi:15:0: Exception check on 'make_whole' will always require the GIL to be acquired. Possible solutions: 1. Declare 'make_whole' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions. 2. Use an 'int' return type on 'make_whole' to allow an error code to be returned. performance hint: mdtraj/geometry/src/image_molecules.pxi:36:0: Exception check on 'anchor_dists' will always require the GIL to be acquired. Possible solutions: 1. Declare 'anchor_dists' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions. 2. Use an 'int' return type on 'anchor_dists' to allow an error code to be returned. performance hint: mdtraj/geometry/src/image_molecules.pxi:68:0: Exception check on 'wrap_mols' will always require the GIL to be acquired. Possible solutions: 1. Declare 'wrap_mols' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions. 2. Use an 'int' return type on 'wrap_mols' to allow an error code to be returned. C compiler: Attempting to autodetect OpenMP support... Compiler supports OpenMP Attempting to autodetect SSE2 support... Compiler supports SSE2 Attempting to autodetect SSE3 support... Compiler supports SSE3 Attempting to autodetect SSE4.1 support... Compiler supports SSE4.1 Attempting to autodetect NEON support... Did not detect NEON support [ 1/10] Cythonizing mdtraj/formats/dcd/dcd.pyx [ 2/10] Cythonizing mdtraj/formats/dtr/dtr.pyx [ 3/10] Cythonizing mdtraj/formats/xtc/trr.pyx [ 4/10] Cythonizing mdtraj/formats/xtc/xtc.pyx [ 5/10] Cythonizing mdtraj/geometry/drid.pyx [ 6/10] Cythonizing mdtraj/geometry/neighborlist.pyx [ 7/10] Cythonizing mdtraj/geometry/neighbors.pyx [ 8/10] Cythonizing mdtraj/geometry/src/_geometry.pyx [ 9/10] Cythonizing mdtraj/rmsd/_lprmsd.pyx [10/10] Cythonizing mdtraj/rmsd/_rmsd.pyx /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: GNU Lesser General Public License v2 or later (LGPLv2+) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running bdist_wheel running build running build_py creating build/lib.linux-i686-cpython-313/mdtraj copying mdtraj/io.py -> build/lib.linux-i686-cpython-313/mdtraj copying mdtraj/_version.py -> build/lib.linux-i686-cpython-313/mdtraj copying mdtraj/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj creating build/lib.linux-i686-cpython-313/mdtraj/reporters copying mdtraj/reporters/xtcreporter.py -> build/lib.linux-i686-cpython-313/mdtraj/reporters copying mdtraj/reporters/dcdreporter.py -> build/lib.linux-i686-cpython-313/mdtraj/reporters copying mdtraj/reporters/hdf5reporter.py -> build/lib.linux-i686-cpython-313/mdtraj/reporters copying mdtraj/reporters/netcdfreporter.py -> build/lib.linux-i686-cpython-313/mdtraj/reporters copying mdtraj/reporters/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/reporters copying mdtraj/reporters/basereporter.py -> build/lib.linux-i686-cpython-313/mdtraj/reporters creating build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/dssp.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/thermodynamic_properties.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/angle.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/rdf.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/order.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/internal.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/rg.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/alignment.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/shape.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/contact.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/sasa.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/dihedral.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/pi_stacking.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/hbond.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry copying mdtraj/geometry/distance.py -> build/lib.linux-i686-cpython-313/mdtraj/geometry creating build/lib.linux-i686-cpython-313/mdtraj/utils copying mdtraj/utils/delay_import.py -> build/lib.linux-i686-cpython-313/mdtraj/utils copying mdtraj/utils/unitcell.py -> build/lib.linux-i686-cpython-313/mdtraj/utils copying mdtraj/utils/zipped.py -> build/lib.linux-i686-cpython-313/mdtraj/utils copying mdtraj/utils/singleton.py -> build/lib.linux-i686-cpython-313/mdtraj/utils copying mdtraj/utils/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/utils copying mdtraj/utils/contextmanagers.py -> build/lib.linux-i686-cpython-313/mdtraj/utils copying mdtraj/utils/validation.py -> build/lib.linux-i686-cpython-313/mdtraj/utils copying mdtraj/utils/rotation.py -> build/lib.linux-i686-cpython-313/mdtraj/utils creating build/lib.linux-i686-cpython-313/mdtraj/nmr copying mdtraj/nmr/scalar_couplings.py -> build/lib.linux-i686-cpython-313/mdtraj/nmr copying mdtraj/nmr/shift_wrappers.py -> build/lib.linux-i686-cpython-313/mdtraj/nmr copying mdtraj/nmr/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/nmr creating build/lib.linux-i686-cpython-313/mdtraj/scripts copying mdtraj/scripts/mdinspect.py -> build/lib.linux-i686-cpython-313/mdtraj/scripts copying mdtraj/scripts/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/scripts copying mdtraj/scripts/mdconvert.py -> build/lib.linux-i686-cpython-313/mdtraj/scripts creating build/lib.linux-i686-cpython-313/mdtraj/testing copying mdtraj/testing/testing.py -> build/lib.linux-i686-cpython-313/mdtraj/testing copying mdtraj/testing/docstrings.py -> build/lib.linux-i686-cpython-313/mdtraj/testing copying mdtraj/testing/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/testing copying mdtraj/testing/docscrape.py -> build/lib.linux-i686-cpython-313/mdtraj/testing creating build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/arc.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/xyzfile.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/openmmxml.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/gro.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/lammpstrj.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/hoomdxml.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/mdcrd.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/prmtop.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/psf.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/amberrst.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/registry.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/gsd.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/hdf5.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/netcdf.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/mol2.py -> build/lib.linux-i686-cpython-313/mdtraj/formats copying mdtraj/formats/lh5.py -> build/lib.linux-i686-cpython-313/mdtraj/formats creating build/lib.linux-i686-cpython-313/mdtraj/core copying mdtraj/core/trajectory.py -> build/lib.linux-i686-cpython-313/mdtraj/core copying mdtraj/core/element.py -> build/lib.linux-i686-cpython-313/mdtraj/core copying mdtraj/core/topology.py -> build/lib.linux-i686-cpython-313/mdtraj/core copying mdtraj/core/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/core copying mdtraj/core/selection.py -> build/lib.linux-i686-cpython-313/mdtraj/core copying mdtraj/core/residue_names.py -> build/lib.linux-i686-cpython-313/mdtraj/core creating build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/unit_definitions.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/constants.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/unit.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/doctests.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/quantity.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/mymatrix.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/unit_operators.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/prefix.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/basedimension.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/unit_math.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/baseunit.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit copying mdtraj/utils/unit/standard_dimensions.py -> build/lib.linux-i686-cpython-313/mdtraj/utils/unit creating build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/PdbxReader.py -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/PdbxContainers.py -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/pdbx.py -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx copying mdtraj/formats/pdbx/pdbxfile.py -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx creating build/lib.linux-i686-cpython-313/mdtraj/formats/pdb copying mdtraj/formats/pdb/pdbfile.py -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdb copying mdtraj/formats/pdb/pdbstructure.py -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdb copying mdtraj/formats/pdb/__init__.py -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdb creating build/lib.linux-i686-cpython-313/mdtraj/formats/pdb/data copying mdtraj/formats/pdb/data/residues.xml -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdb/data copying mdtraj/formats/pdb/data/pdbNames.xml -> build/lib.linux-i686-cpython-313/mdtraj/formats/pdb/data UPDATING build/lib.linux-i686-cpython-313/mdtraj/_version.py set build/lib.linux-i686-cpython-313/mdtraj/_version.py to '1.11.0' running build_ext building 'mdtraj.formats.xtc' extension creating build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdr_seek.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdrfile.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile_xtc.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdrfile_xtc.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/xtc.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/xtc.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdrfile.o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdrfile_xtc.o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/xtc.o -L/usr/lib/i386-linux-gnu -o build/lib.linux-i686-cpython-313/mdtraj/formats/xtc.cpython-313-i386-linux-gnu.so building 'mdtraj.formats.trr' extension i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdr_seek.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdrfile.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile_trr.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdrfile_trr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/trr.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/trr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdrfile.o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/src/xdrfile_trr.o build/temp.linux-i686-cpython-313/mdtraj/formats/xtc/trr.o -L/usr/lib/i386-linux-gnu -o build/lib.linux-i686-cpython-313/mdtraj/formats/trr.cpython-313-i386-linux-gnu.so building 'mdtraj.formats.dcd' extension creating build/temp.linux-i686-cpython-313/mdtraj/formats/dcd creating build/temp.linux-i686-cpython-313/mdtraj/formats/dcd/src i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/dcd -Imdtraj/formats/dcd/include/ -Imdtraj/formats/dcd/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dcd/dcd.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/dcd/dcd.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/dcd -Imdtraj/formats/dcd/include/ -Imdtraj/formats/dcd/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dcd/src/dcdplugin.c -o build/temp.linux-i686-cpython-313/mdtraj/formats/dcd/src/dcdplugin.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare mdtraj/formats/dcd/src/dcdplugin.c: In function ‘open_dcd_read’: mdtraj/formats/dcd/src/dcdplugin.c:903:14: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘fio_size_t’ {aka ‘long long int’} [-Wformat=] 903 | printf("dcdplugin) Warning: DCD header claims %d frames, but \n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 906 | dcd->nsets, trjsize, newnsets, framesize); | ~~~~~~~ | | | fio_size_t {aka long long int} mdtraj/formats/dcd/src/dcdplugin.c:904:39: note: format string is defined here 904 | "dcdplugin) file size (%ld) indicates there are actually \n" | ~~^ | | | long int | %lld mdtraj/formats/dcd/src/dcdplugin.c:903:14: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 5 has type ‘fio_size_t’ {aka ‘long long int’} [-Wformat=] 903 | printf("dcdplugin) Warning: DCD header claims %d frames, but \n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 906 | dcd->nsets, trjsize, newnsets, framesize); | ~~~~~~~~~ | | | fio_size_t {aka long long int} mdtraj/formats/dcd/src/dcdplugin.c:905:36: note: format string is defined here 905 | "%d frames of size (%ld)\n", | ~~^ | | | long int | %lld i686-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/formats/dcd/dcd.o build/temp.linux-i686-cpython-313/mdtraj/formats/dcd/src/dcdplugin.o -L/usr/lib/i386-linux-gnu -o build/lib.linux-i686-cpython-313/mdtraj/formats/dcd.cpython-313-i386-linux-gnu.so building 'mdtraj.formats.dtr' extension creating build/temp.linux-i686-cpython-313/mdtraj/formats/dtr creating build/temp.linux-i686-cpython-313/mdtraj/formats/dtr/src i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DDESRES_READ_TIMESTEP2=1 -Imdtraj/formats/dtr -Imdtraj/formats/dtr/include/ -Imdtraj/formats/dtr/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dtr/dtr.cpp -o build/temp.linux-i686-cpython-313/mdtraj/formats/dtr/dtr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DDESRES_READ_TIMESTEP2=1 -Imdtraj/formats/dtr -Imdtraj/formats/dtr/include/ -Imdtraj/formats/dtr/ -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dtr/src/dtrplugin.cxx -o build/temp.linux-i686-cpython-313/mdtraj/formats/dtr/src/dtrplugin.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare mdtraj/formats/dtr/src/dtrplugin.cxx: In member function ‘bool desres::molfile::Timekeys::init(const std::string&)’: mdtraj/formats/dtr/src/dtrplugin.cxx:486:64: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 486 | fprintf(stderr, "non-constant framesize at frame %ld\n", i); | ~~^ ~ | | | | | size_t {aka unsigned int} | long int | %d mdtraj/formats/dtr/src/dtrplugin.cxx:487:27: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 487 | printf("size %d framesize %d\n\n", | ~^ | | | int | %lld 488 | keys[i].size(), m_framesize); | ~~~~~~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx:487:40: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 487 | printf("size %d framesize %d\n\n", | ~^ | | | int | %lld 488 | keys[i].size(), m_framesize); | ~~~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx:494:60: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 494 | "non-constant time interval at frame %ld\n", i); | ~~^ ~ | | | | | size_t {aka unsigned int} | long int | %d mdtraj/formats/dtr/src/dtrplugin.cxx:499:60: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 499 | fprintf(stderr, "unexpected offset for frame %ld\n", i); | ~~^ ~ | | | | | size_t {aka unsigned int} | long int | %d mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘int handle_wrapped_v2({anonymous}::BlobMap&, uint32_t, bool, molfile_timestep_t*)’: mdtraj/formats/dtr/src/dtrplugin.cxx:1301:69: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 4 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 1301 | fprintf(stderr, "ERROR, Expected %d elements in POSITION; got %ld\n", | ~~^ | | | long int | %lld 1302 | 3*natoms, pos.count); | ~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx:1310:71: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 4 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 1310 | fprintf(stderr, "ERROR, Expected %d elements in VELOCITY; got %ld\n", | ~~^ | | | long int | %lld 1311 | 3*natoms, vel.count); | ~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘int handle_wrapped_v1({anonymous}::BlobMap&, uint32_t, bool, molfile_timestep_t*)’: mdtraj/formats/dtr/src/dtrplugin.cxx:1572:45: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘uint64_t’ {aka ‘long long unsigned int’} [-Wformat=] 1572 | fprintf(stderr, "VELOCITY field has %ld values; expected %d\n", | ~~^ | | | long int | %lld 1573 | velblob.count, 3*natoms); | ~~~~~~~~~~~~~ | | | uint64_t {aka long long unsigned int} mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘void DDmkdir(const std::string&, mode_t, int, int)’: mdtraj/formats/dtr/src/dtrplugin.cxx:706:23: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=] 706 | sprintf(sub, "%03x/", i); | ^~~~ mdtraj/formats/dtr/src/dtrplugin.cxx:706:22: note: directive argument in the range [0, 2147483646] 706 | sprintf(sub, "%03x/", i); | ^~~~~~~ In file included from /usr/include/stdio.h:970, from mdtraj/formats/dtr/include/molfile_plugin.h:35, from mdtraj/formats/dtr/include/dtrplugin.hxx:46, from mdtraj/formats/dtr/src/dtrplugin.cxx:42: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void DDmkdir(const std::string&, mode_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:706:9: /usr/include/i386-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10 bytes into a destination of size 6 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘void DDmkdir(const std::string&, mode_t, int, int)’: mdtraj/formats/dtr/src/dtrplugin.cxx:714:30: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=] 714 | sprintf(subsub, "%03x", j); | ^~~~ mdtraj/formats/dtr/src/dtrplugin.cxx:714:29: note: directive argument in the range [0, 2147483646] 714 | sprintf(subsub, "%03x", j); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void DDmkdir(const std::string&, mode_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:714:13: /usr/include/i386-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 4 and 9 bytes into a destination of size 6 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘std::string framefile(const std::string&, size_t, size_t, int, int)’: mdtraj/formats/dtr/src/dtrplugin.cxx:667:35: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 667 | sprintf(answer, "%03x/", d1); | ^ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘std::string DDreldir(const std::string&, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:667:13, inlined from ‘std::string framefile(const std::string&, size_t, size_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23: /usr/include/i386-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10 bytes into a destination of size 9 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mdtraj/formats/dtr/src/dtrplugin.cxx: In function ‘std::string framefile(const std::string&, size_t, size_t, int, int)’: mdtraj/formats/dtr/src/dtrplugin.cxx:665:35: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size between 0 and 5 [-Wformat-overflow=] 665 | sprintf(answer, "%03x/%03x/", d1, d2); | ^~~~ In function ‘std::string DDreldir(const std::string&, int, int)’, inlined from ‘std::string framefile(const std::string&, size_t, size_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23: mdtraj/formats/dtr/src/dtrplugin.cxx:665:29: note: directive argument in the range [0, 2147483646] 665 | sprintf(answer, "%03x/%03x/", d1, d2); | ^~~~~~~~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘std::string DDreldir(const std::string&, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:665:13, inlined from ‘std::string framefile(const std::string&, size_t, size_t, int, int)’ at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23: /usr/include/i386-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 9 and 19 bytes into a destination of size 9 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/formats/dtr/dtr.o build/temp.linux-i686-cpython-313/mdtraj/formats/dtr/src/dtrplugin.o -L/usr/lib/i386-linux-gnu -o build/lib.linux-i686-cpython-313/mdtraj/formats/dtr.cpython-313-i386-linux-gnu.so building 'mdtraj._rmsd' extension creating build/temp.linux-i686-cpython-313/mdtraj/rmsd creating build/temp.linux-i686-cpython-313/mdtraj/rmsd/src i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/_rmsd.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/center.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/rotation.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/rotation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/rmsd/_rmsd.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/center.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/rotation.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-313/mdtraj/_rmsd.cpython-313-i386-linux-gnu.so building 'mdtraj._lprmsd' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/_lprmsd.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/_lprmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/Munkres.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/Munkres.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/center.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/euclidean_permutation.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/euclidean_permutation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/fancy_index.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/fancy_index.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/rotation.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/rotation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/rmsd/_lprmsd.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/Munkres.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/center.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/euclidean_permutation.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/fancy_index.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/rotation.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-313/mdtraj/_lprmsd.cpython-313-i386-linux-gnu.so building 'mdtraj.core.lib.libtheobald' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -msse2 -mssse3 -O3 -funroll-loops --std=c++11 i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/center.o -msse2 -mssse3 -O3 -funroll-loops --std=c++11 i686-linux-gnu-gcc-ar rcs build/lib.linux-i686-cpython-313/mdtraj/core/lib/libtheobald.a build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o build/temp.linux-i686-cpython-313/mdtraj/rmsd/src/center.o building 'mdtraj.geometry._geometry' extension creating build/temp.linux-i686-cpython-313/mdtraj/geometry/src i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/_geometry.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/_geometry.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/dssp.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/dssp.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/geometry.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/geometry.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/sasa.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/sasa.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/geometry/src/_geometry.o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/dssp.o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/geometry.o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/sasa.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-313/mdtraj/geometry/_geometry.cpython-313-i386-linux-gnu.so building 'mdtraj.geometry.drid' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/drid.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/drid.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/dridkernels.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/dridkernels.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/moments.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/moments.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/geometry/drid.o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/dridkernels.o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/moments.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-313/mdtraj/geometry/drid.cpython-313-i386-linux-gnu.so building 'mdtraj.geometry.neighbors' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/neighbors.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/neighbors.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/neighbors.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/neighbors.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/geometry/neighbors.o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/neighbors.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-313/mdtraj/geometry/neighbors.cpython-313-i386-linux-gnu.so building 'mdtraj.geometry.neighborlist' extension i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/neighborlist.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/neighborlist.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/neighborlist.cpp -o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/neighborlist.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.11.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i686-cpython-313/mdtraj/geometry/neighborlist.o build/temp.linux-i686-cpython-313/mdtraj/geometry/src/neighborlist.o -L/usr/lib/i386-linux-gnu -lgomp -o build/lib.linux-i686-cpython-313/mdtraj/geometry/neighborlist.cpython-313-i386-linux-gnu.so installing to build/bdist.linux-i686/wheel running install running install_lib creating build/bdist.linux-i686/wheel creating build/bdist.linux-i686/wheel/mdtraj copying build/lib.linux-i686-cpython-313/mdtraj/io.py -> build/bdist.linux-i686/wheel/./mdtraj creating build/bdist.linux-i686/wheel/mdtraj/reporters copying build/lib.linux-i686-cpython-313/mdtraj/reporters/xtcreporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-313/mdtraj/reporters/dcdreporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-313/mdtraj/reporters/hdf5reporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-313/mdtraj/reporters/netcdfreporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-313/mdtraj/reporters/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-313/mdtraj/reporters/basereporter.py -> build/bdist.linux-i686/wheel/./mdtraj/reporters copying build/lib.linux-i686-cpython-313/mdtraj/_lprmsd.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj copying build/lib.linux-i686-cpython-313/mdtraj/_version.py -> build/bdist.linux-i686/wheel/./mdtraj creating build/bdist.linux-i686/wheel/mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/drid.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/dssp.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/thermodynamic_properties.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/angle.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/rdf.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/_geometry.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/order.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/internal.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/rg.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/alignment.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/shape.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/contact.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/neighborlist.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/sasa.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/dihedral.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/neighbors.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/pi_stacking.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/hbond.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/geometry/distance.py -> build/bdist.linux-i686/wheel/./mdtraj/geometry copying build/lib.linux-i686-cpython-313/mdtraj/_rmsd.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj creating build/bdist.linux-i686/wheel/mdtraj/utils copying build/lib.linux-i686-cpython-313/mdtraj/utils/delay_import.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-313/mdtraj/utils/unitcell.py -> build/bdist.linux-i686/wheel/./mdtraj/utils creating build/bdist.linux-i686/wheel/mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/unit_definitions.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/constants.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/unit.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/doctests.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/quantity.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/mymatrix.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/unit_operators.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/prefix.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/basedimension.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/unit_math.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/baseunit.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/unit/standard_dimensions.py -> build/bdist.linux-i686/wheel/./mdtraj/utils/unit copying build/lib.linux-i686-cpython-313/mdtraj/utils/zipped.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-313/mdtraj/utils/singleton.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-313/mdtraj/utils/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-313/mdtraj/utils/contextmanagers.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-313/mdtraj/utils/validation.py -> build/bdist.linux-i686/wheel/./mdtraj/utils copying build/lib.linux-i686-cpython-313/mdtraj/utils/rotation.py -> build/bdist.linux-i686/wheel/./mdtraj/utils creating build/bdist.linux-i686/wheel/mdtraj/nmr copying build/lib.linux-i686-cpython-313/mdtraj/nmr/scalar_couplings.py -> build/bdist.linux-i686/wheel/./mdtraj/nmr copying build/lib.linux-i686-cpython-313/mdtraj/nmr/shift_wrappers.py -> build/bdist.linux-i686/wheel/./mdtraj/nmr copying build/lib.linux-i686-cpython-313/mdtraj/nmr/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/nmr copying build/lib.linux-i686-cpython-313/mdtraj/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj creating build/bdist.linux-i686/wheel/mdtraj/scripts copying build/lib.linux-i686-cpython-313/mdtraj/scripts/mdinspect.py -> build/bdist.linux-i686/wheel/./mdtraj/scripts copying build/lib.linux-i686-cpython-313/mdtraj/scripts/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/scripts copying build/lib.linux-i686-cpython-313/mdtraj/scripts/mdconvert.py -> build/bdist.linux-i686/wheel/./mdtraj/scripts creating build/bdist.linux-i686/wheel/mdtraj/testing copying build/lib.linux-i686-cpython-313/mdtraj/testing/testing.py -> build/bdist.linux-i686/wheel/./mdtraj/testing copying build/lib.linux-i686-cpython-313/mdtraj/testing/docstrings.py -> build/bdist.linux-i686/wheel/./mdtraj/testing copying build/lib.linux-i686-cpython-313/mdtraj/testing/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/testing copying build/lib.linux-i686-cpython-313/mdtraj/testing/docscrape.py -> build/bdist.linux-i686/wheel/./mdtraj/testing creating build/bdist.linux-i686/wheel/mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/arc.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/xyzfile.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/openmmxml.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/gro.py -> build/bdist.linux-i686/wheel/./mdtraj/formats creating build/bdist.linux-i686/wheel/mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx/PdbxReader.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx/PdbxContainers.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx/pdbx.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdbx/pdbxfile.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdbx copying build/lib.linux-i686-cpython-313/mdtraj/formats/lammpstrj.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/hoomdxml.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/mdcrd.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/dcd.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/formats creating build/bdist.linux-i686/wheel/mdtraj/formats/pdb copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdb/pdbfile.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb creating build/bdist.linux-i686/wheel/mdtraj/formats/pdb/data copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdb/data/residues.xml -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb/data copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdb/data/pdbNames.xml -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb/data copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdb/pdbstructure.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb copying build/lib.linux-i686-cpython-313/mdtraj/formats/pdb/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/formats/pdb copying build/lib.linux-i686-cpython-313/mdtraj/formats/prmtop.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/psf.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/amberrst.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/registry.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/dtr.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/gsd.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/hdf5.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/xtc.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/netcdf.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/mol2.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/lh5.py -> build/bdist.linux-i686/wheel/./mdtraj/formats copying build/lib.linux-i686-cpython-313/mdtraj/formats/trr.cpython-313-i386-linux-gnu.so -> build/bdist.linux-i686/wheel/./mdtraj/formats creating build/bdist.linux-i686/wheel/mdtraj/core copying build/lib.linux-i686-cpython-313/mdtraj/core/trajectory.py -> build/bdist.linux-i686/wheel/./mdtraj/core creating build/bdist.linux-i686/wheel/mdtraj/core/lib copying build/lib.linux-i686-cpython-313/mdtraj/core/lib/theobald_rmsd.h -> build/bdist.linux-i686/wheel/./mdtraj/core/lib copying build/lib.linux-i686-cpython-313/mdtraj/core/lib/libtheobald.a -> build/bdist.linux-i686/wheel/./mdtraj/core/lib copying build/lib.linux-i686-cpython-313/mdtraj/core/lib/center.h -> build/bdist.linux-i686/wheel/./mdtraj/core/lib copying build/lib.linux-i686-cpython-313/mdtraj/core/element.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-313/mdtraj/core/topology.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-313/mdtraj/core/__init__.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-313/mdtraj/core/selection.py -> build/bdist.linux-i686/wheel/./mdtraj/core copying build/lib.linux-i686-cpython-313/mdtraj/core/residue_names.py -> build/bdist.linux-i686/wheel/./mdtraj/core running install_egg_info running egg_info writing mdtraj.egg-info/PKG-INFO writing dependency_links to mdtraj.egg-info/dependency_links.txt writing entry points to mdtraj.egg-info/entry_points.txt writing requirements to mdtraj.egg-info/requires.txt writing top-level names to mdtraj.egg-info/top_level.txt dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/i386-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative reading manifest file 'mdtraj.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching '__pycache__' no previously-included directories found matching '*.pyc' adding license file 'LICENSE' writing manifest file 'mdtraj.egg-info/SOURCES.txt' Copying mdtraj.egg-info to build/bdist.linux-i686/wheel/./mdtraj-1.11.0.egg-info running install_scripts creating build/bdist.linux-i686/wheel/mdtraj-1.11.0.dist-info/WHEEL creating '/build/reproducible-path/mdtraj-1.11.0/.pybuild/cpython3_3.13_mdtraj/.tmp-wijths0o/mdtraj-1.11.0-cp313-cp313-linux_i686.whl' and adding 'build/bdist.linux-i686/wheel' to it adding 'mdtraj/__init__.py' adding 'mdtraj/_lprmsd.cpython-313-i386-linux-gnu.so' adding 'mdtraj/_rmsd.cpython-313-i386-linux-gnu.so' adding 'mdtraj/_version.py' adding 'mdtraj/io.py' adding 'mdtraj/core/__init__.py' adding 'mdtraj/core/element.py' adding 'mdtraj/core/residue_names.py' adding 'mdtraj/core/selection.py' adding 'mdtraj/core/topology.py' adding 'mdtraj/core/trajectory.py' adding 'mdtraj/core/lib/center.h' adding 'mdtraj/core/lib/libtheobald.a' adding 'mdtraj/core/lib/theobald_rmsd.h' adding 'mdtraj/formats/__init__.py' adding 'mdtraj/formats/amberrst.py' adding 'mdtraj/formats/arc.py' adding 'mdtraj/formats/dcd.cpython-313-i386-linux-gnu.so' adding 'mdtraj/formats/dtr.cpython-313-i386-linux-gnu.so' adding 'mdtraj/formats/gro.py' adding 'mdtraj/formats/gsd.py' adding 'mdtraj/formats/hdf5.py' adding 'mdtraj/formats/hoomdxml.py' adding 'mdtraj/formats/lammpstrj.py' adding 'mdtraj/formats/lh5.py' adding 'mdtraj/formats/mdcrd.py' adding 'mdtraj/formats/mol2.py' adding 'mdtraj/formats/netcdf.py' adding 'mdtraj/formats/openmmxml.py' adding 'mdtraj/formats/prmtop.py' adding 'mdtraj/formats/psf.py' adding 'mdtraj/formats/registry.py' adding 'mdtraj/formats/trr.cpython-313-i386-linux-gnu.so' adding 'mdtraj/formats/xtc.cpython-313-i386-linux-gnu.so' adding 'mdtraj/formats/xyzfile.py' adding 'mdtraj/formats/pdb/__init__.py' adding 'mdtraj/formats/pdb/pdbfile.py' adding 'mdtraj/formats/pdb/pdbstructure.py' adding 'mdtraj/formats/pdb/data/pdbNames.xml' adding 'mdtraj/formats/pdb/data/residues.xml' adding 'mdtraj/formats/pdbx/PdbxContainers.py' adding 'mdtraj/formats/pdbx/PdbxReader.py' adding 'mdtraj/formats/pdbx/__init__.py' adding 'mdtraj/formats/pdbx/pdbx.py' adding 'mdtraj/formats/pdbx/pdbxfile.py' adding 'mdtraj/geometry/__init__.py' adding 'mdtraj/geometry/_geometry.cpython-313-i386-linux-gnu.so' adding 'mdtraj/geometry/alignment.py' adding 'mdtraj/geometry/angle.py' adding 'mdtraj/geometry/contact.py' adding 'mdtraj/geometry/dihedral.py' adding 'mdtraj/geometry/distance.py' adding 'mdtraj/geometry/drid.cpython-313-i386-linux-gnu.so' adding 'mdtraj/geometry/dssp.py' adding 'mdtraj/geometry/hbond.py' adding 'mdtraj/geometry/internal.py' adding 'mdtraj/geometry/neighborlist.cpython-313-i386-linux-gnu.so' adding 'mdtraj/geometry/neighbors.cpython-313-i386-linux-gnu.so' adding 'mdtraj/geometry/order.py' adding 'mdtraj/geometry/pi_stacking.py' adding 'mdtraj/geometry/rdf.py' adding 'mdtraj/geometry/rg.py' adding 'mdtraj/geometry/sasa.py' adding 'mdtraj/geometry/shape.py' adding 'mdtraj/geometry/thermodynamic_properties.py' adding 'mdtraj/nmr/__init__.py' adding 'mdtraj/nmr/scalar_couplings.py' adding 'mdtraj/nmr/shift_wrappers.py' adding 'mdtraj/reporters/__init__.py' adding 'mdtraj/reporters/basereporter.py' adding 'mdtraj/reporters/dcdreporter.py' adding 'mdtraj/reporters/hdf5reporter.py' adding 'mdtraj/reporters/netcdfreporter.py' adding 'mdtraj/reporters/xtcreporter.py' adding 'mdtraj/scripts/__init__.py' adding 'mdtraj/scripts/mdconvert.py' adding 'mdtraj/scripts/mdinspect.py' adding 'mdtraj/testing/__init__.py' adding 'mdtraj/testing/docscrape.py' adding 'mdtraj/testing/docstrings.py' adding 'mdtraj/testing/testing.py' adding 'mdtraj/utils/__init__.py' adding 'mdtraj/utils/contextmanagers.py' adding 'mdtraj/utils/delay_import.py' adding 'mdtraj/utils/rotation.py' adding 'mdtraj/utils/singleton.py' adding 'mdtraj/utils/unitcell.py' adding 'mdtraj/utils/validation.py' adding 'mdtraj/utils/zipped.py' adding 'mdtraj/utils/unit/__init__.py' adding 'mdtraj/utils/unit/basedimension.py' adding 'mdtraj/utils/unit/baseunit.py' adding 'mdtraj/utils/unit/constants.py' adding 'mdtraj/utils/unit/doctests.py' adding 'mdtraj/utils/unit/mymatrix.py' adding 'mdtraj/utils/unit/prefix.py' adding 'mdtraj/utils/unit/quantity.py' adding 'mdtraj/utils/unit/standard_dimensions.py' adding 'mdtraj/utils/unit/unit.py' adding 'mdtraj/utils/unit/unit_definitions.py' adding 'mdtraj/utils/unit/unit_math.py' adding 'mdtraj/utils/unit/unit_operators.py' adding 'mdtraj-1.11.0.dist-info/licenses/LICENSE' adding 'mdtraj-1.11.0.dist-info/METADATA' adding 'mdtraj-1.11.0.dist-info/WHEEL' adding 'mdtraj-1.11.0.dist-info/entry_points.txt' adding 'mdtraj-1.11.0.dist-info/top_level.txt' adding 'mdtraj-1.11.0.dist-info/RECORD' removing build/bdist.linux-i686/wheel Successfully built mdtraj-1.11.0-cp313-cp313-linux_i686.whl I: pybuild plugin_pyproject:155: Unpacking wheel built for python3.13 with "installer" module dh_auto_test -a -O--buildsystem=pybuild pybuild --test --test-pytest -i python{version} -p "3.14 3.13" I: pybuild base:317: cd /build/reproducible-path/mdtraj-1.11.0/.pybuild/cpython3_3.14_mdtraj/build; python3.14 -m pytest -k 'not (mdconvert or pi_stacking.ipynb or nmr.ipynb or test_image_molecules) and not (test_3 or test_pdb_from_url or test_1vii_url_and_gz)' ============================= test session starts ============================== platform linux -- Python 3.14.2, pytest-8.4.2, pluggy-1.6.0 -- /usr/bin/python3.14 cachedir: .pytest_cache rootdir: /build/reproducible-path/mdtraj-1.11.0/.pybuild/cpython3_3.14_mdtraj/build configfile: pyproject.toml testpaths: tests, examples plugins: typeguard-4.4.4, rerunfailures-16.1 collecting ... collected 1161 items / 22 deselected / 1139 selected tests/test_alignment.py::test_rmsd_zero PASSED [ 0%] tests/test_alignment.py::test_rmsd_nonzero PASSED [ 0%] tests/test_alignment.py::test_transform PASSED [ 0%] tests/test_alignment.py::test_transform2 PASSED [ 0%] tests/test_angles.py::test_angle_pbc_0 PASSED [ 0%] tests/test_angles.py::test_generator PASSED [ 0%] tests/test_angles.py::test_angle_180[True] PASSED [ 0%] tests/test_angles.py::test_angle_180[False] PASSED [ 0%] tests/test_arc.py::test_read_0 PASSED [ 0%] tests/test_arc.py::test_read_arctraj PASSED [ 0%] tests/test_arc.py::test_read_arctraj_top PASSED [ 0%] tests/test_arc.py::test_read_pbc PASSED [ 1%] tests/test_capi.py::test_1 PASSED [ 1%] tests/test_contact.py::test_contact_0 PASSED [ 1%] tests/test_contact.py::test_contact_1 PASSED [ 1%] tests/test_contact.py::test_contact_2 PASSED [ 1%] tests/test_contact.py::test_contact_3 PASSED [ 1%] tests/test_contact.py::test_contact_4 PASSED [ 1%] tests/test_crd.py::test_prmtop_with_overflow_mdcrd PASSED [ 1%] tests/test_dcd.py::test_read PASSED [ 1%] tests/test_dcd.py::test_read_2 PASSED [ 1%] tests/test_dcd.py::test_read_stride PASSED [ 1%] tests/test_dcd.py::test_read_stride_2 PASSED [ 2%] tests/test_dcd.py::test_read_3 PASSED [ 2%] tests/test_dcd.py::test_read_4 PASSED [ 2%] tests/test_dcd.py::test_read_5 PASSED [ 2%] tests/test_dcd.py::test_read_6 PASSED [ 2%] tests/test_dcd.py::test_write_0 PASSED [ 2%] tests/test_dcd.py::test_write_1 PASSED [ 2%] tests/test_dcd.py::test_write_2 PASSED [ 2%] tests/test_dcd.py::test_write_3 PASSED [ 2%] tests/test_dcd.py::test_write_4 PASSED [ 2%] tests/test_dcd.py::test_do_overwrite PASSED [ 2%] tests/test_dcd.py::test_dont_overwrite PASSED [ 2%] tests/test_dcd.py::test_read_closed PASSED [ 3%] tests/test_dcd.py::test_write_closed PASSED [ 3%] tests/test_dcd.py::test_tell PASSED [ 3%] tests/test_dcd.py::test_seek PASSED [ 3%] tests/test_dcd.py::test_ragged_1 PASSED [ 3%] tests/test_dcd.py::test_ragged_2 PASSED [ 3%] tests/test_dihedral.py::test_compute_phi PASSED [ 3%] tests/test_dihedral.py::test_compute_psi PASSED [ 3%] tests/test_dihedral.py::test_compute_chi SKIPPED (pymol executable n...) 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tests/test_lprmsd.py::test_lprmsd_4 PASSED [ 25%] tests/test_lprmsd.py::test_lprmsd_5 PASSED [ 25%] tests/test_mdcrd.py::test_read_0 PASSED [ 25%] tests/test_mdcrd.py::test_read_1 PASSED [ 25%] tests/test_mdcrd.py::test_read_write_0 PASSED [ 25%] tests/test_mdcrd.py::test_read_write_1 PASSED [ 25%] tests/test_mdcrd.py::test_read_write_2 PASSED [ 25%] tests/test_mdcrd.py::test_multiread PASSED [ 25%] tests/test_mdcrd.py::test_seek PASSED [ 26%] tests/test_mdcrd.py::test_atom_indices_0 PASSED [ 26%] tests/test_mdcrd.py::test_atom_indices_1 PASSED [ 26%] tests/test_mol2.py::test_load_mol2 PASSED [ 26%] tests/test_mol2.py::test_load_freesolv_gaffmol2_vs_sybylmol2_vs_obabelpdb SKIPPED [ 26%] tests/test_mol2.py::test_mol2_dataframe PASSED [ 26%] tests/test_mol2.py::test_mol2_dataframe_status PASSED [ 26%] tests/test_mol2.py::test_mol2_warnings PASSED [ 26%] tests/test_mol2.py::test_mol2_status_bits PASSED [ 26%] tests/test_mol2.py::test_mol2_without_bonds PASSED [ 26%] tests/test_mol2.py::test_mol2_element_name PASSED [ 26%] tests/test_mol2.py::test_load_all_mol2[li.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[lysozyme-ligand-tripos.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[imatinib.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[status-bits.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[adp.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[water_acn.mol2] PASSED [ 27%] tests/test_mol2.py::test_mol2_n_residues PASSED [ 27%] tests/test_neighborlist.py::test_nonperiodic PASSED [ 27%] tests/test_neighborlist.py::test_periodic PASSED [ 27%] tests/test_neighborlist.py::test_triclinic PASSED [ 27%] tests/test_neighbors.py::test_compute_neighbors_1 PASSED [ 27%] tests/test_neighbors.py::test_compute_neighbors_2 PASSED [ 28%] tests/test_neighbors.py::test_compute_neighbors_3 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_after_close PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_shape PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_chunk_1 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_chunk_2 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_chunk_3 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_write_1 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_write_2 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_ragged_1 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_ragged_2 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_write_25 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_write_3 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_n_atoms PASSED [ 29%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_do_overwrite PASSED [ 29%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_do_not_overwrite PASSED [ 29%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_trajectory_save_load PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_after_close PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_shape PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_chunk_1 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_chunk_2 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_chunk_3 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_write_1 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_write_2 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_ragged_1 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_ragged_2 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_read_write_25 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_write_3 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_n_atoms PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_do_overwrite PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_do_not_overwrite PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_trajectory_save_load PASSED [ 30%] tests/test_netcdf.py::test_cpptraj SKIPPED (This test requires cpptr...) [ 30%] tests/test_nmr.py::test_spartaplus SKIPPED (SPARTA+ binary not found) [ 30%] tests/test_nmr.py::test_ppm SKIPPED (PPM binary not found) [ 30%] tests/test_nmr.py::test_shiftx2 SKIPPED (SHIFTX2 binary not found or...) [ 31%] tests/test_nmr.py::test_2_scalar_couplings PASSED [ 31%] tests/test_order.py::test_nematic_order PASSED [ 31%] tests/test_order.py::test_director PASSED [ 31%] tests/test_order.py::test_inertia PASSED [ 31%] tests/test_order.py::test_nematic_order_args PASSED [ 31%] tests/test_order.py::test_order_from_traj PASSED [ 31%] tests/test_order.py::test_directors_angle_from_traj PASSED [ 31%] tests/test_pdb.py::test_pdbread PASSED [ 31%] tests/test_pdb.py::test_pdbread_with_input_top PASSED [ 31%] tests/test_pdb.py::test_pdbwrite PASSED [ 31%] tests/test_pdb.py::test_load_multiframe PASSED [ 32%] tests/test_pdb.py::test_4ZUO PASSED [ 32%] tests/test_pdb.py::test_2EQQ_0 PASSED [ 32%] tests/test_pdb.py::test_1vii_solvated_with_ligand PASSED [ 32%] tests/test_pdb.py::test_write_large PASSED [ 32%] tests/test_pdb.py::test_write_large_2 PASSED [ 32%] tests/test_pdb.py::test_pdbstructure_0 PASSED [ 32%] tests/test_pdb.py::test_pdbstructure_1 PASSED [ 32%] tests/test_pdb.py::test_pdbstructure_2 PASSED [ 32%] tests/test_pdb.py::test_pdbstructure_3 PASSED [ 32%] tests/test_pdb.py::test_1ncw PASSED [ 32%] tests/test_pdb.py::test_segment_id PASSED [ 33%] tests/test_pdb.py::test_bfactors PASSED [ 33%] tests/test_pdb.py::test_hex PASSED [ 33%] tests/test_pdb.py::test_dummy_pdb_box_detection PASSED [ 33%] tests/test_pdb.py::test_multichain_load_cycle PASSED [ 33%] tests/test_pdb.py::test_multichain_load_cycle_noter PASSED [ 33%] tests/test_pdb.py::test_load_pdb_input_top PASSED [ 33%] tests/test_pdb.py::test_chimera_indexing PASSED [ 33%] tests/test_pdb.py::test_chimera_indexing_skip PASSED [ 33%] tests/test_pdb.py::test_vmd_indexing PASSED [ 33%] tests/test_pdb.py::test_overflow_indexing PASSED [ 33%] tests/test_pdb.py::test_blank_indexing PASSED [ 33%] tests/test_pdb.py::test_pdb_charge_read PASSED [ 34%] tests/test_pdb.py::test_pdb_charge_write PASSED [ 34%] tests/test_pdbx.py::test_convert PASSED [ 34%] tests/test_pdbx.py::test_load_pdbx_file PASSED [ 34%] tests/test_pdbx.py::test_write_and_read_pdbx PASSED [ 34%] tests/test_pdbx.py::test_write_and_read_pdbx_4py5 PASSED [ 34%] tests/test_pdbx.py::test_residue_selection_from_cif PASSED [ 34%] tests/test_pi_stacking.py::test_pi_stacking PASSED [ 34%] tests/test_pi_stacking.py::test_t_stacking_more_relaxed_radius PASSED [ 34%] tests/test_pi_stacking.py::test_t_stacking_default_settings PASSED [ 34%] tests/test_prmtop.py::test_load_prmtop PASSED [ 34%] tests/test_prmtop.py::test_load_chamber_prmtop PASSED [ 35%] tests/test_psf.py::test_load_psf PASSED [ 35%] tests/test_psf.py::test_multichain_psf PASSED [ 35%] tests/test_psf.py::test_load_mdcrd_with_psf PASSED [ 35%] tests/test_psf.py::test_against_vmd[1vii.pdb] SKIPPED (This test req...) [ 35%] tests/test_psf.py::test_against_vmd[2EQQ.pdb] SKIPPED (This test req...) [ 35%] tests/test_quaternion.py::test_quaternion_0 PASSED [ 35%] tests/test_quaternion.py::test_quaternion_1 PASSED [ 35%] tests/test_quaternion.py::test_quaternion_2 PASSED [ 35%] tests/test_rdf.py::test_rdf_norm PASSED [ 35%] tests/test_rdf.py::test_compare_rdf_to_gromacs SKIPPED (Binning does...) [ 35%] tests/test_rdf.py::test_rdf_t[True-True] PASSED [ 35%] tests/test_rdf.py::test_rdf_t[True-False] PASSED [ 36%] tests/test_rdf.py::test_rdf_t[False-True] PASSED [ 36%] tests/test_rdf.py::test_rdf_t[False-False] PASSED [ 36%] tests/test_rdf.py::test_rdf_t_norm[0] PASSED [ 36%] tests/test_rdf.py::test_rdf_t_norm[2] PASSED [ 36%] tests/test_rdf.py::test_rdf_t_norm[4] PASSED [ 36%] tests/test_rdf.py::test_compare_rdf_t_at_0[True-True] PASSED [ 36%] tests/test_rdf.py::test_compare_rdf_t_at_0[True-False] PASSED [ 36%] tests/test_rdf.py::test_compare_rdf_t_at_0[False-True] PASSED [ 36%] tests/test_rdf.py::test_compare_rdf_t_at_0[False-False] PASSED [ 36%] tests/test_rdf.py::test_amber_rdf_t[True-True] PASSED [ 36%] tests/test_rdf.py::test_amber_rdf_t[True-False] PASSED [ 37%] tests/test_rdf.py::test_amber_rdf_t[False-True] PASSED [ 37%] tests/test_rdf.py::test_amber_rdf_t[False-False] PASSED [ 37%] tests/test_rdf.py::test_compare_gromacs_rdf_t SKIPPED (Binning does ...) [ 37%] tests/test_rdf.py::test_compare_rdf_t_master PASSED [ 37%] tests/test_rdf.py::test_compare_n_concurrent_pairs PASSED [ 37%] tests/test_reporter.py::test_reporter SKIPPED (test_reporter.py need...) [ 37%] tests/test_reporter.py::test_reporter_subset SKIPPED (test_reporter....) [ 37%] tests/test_reporter.py::test_xtc_reporter_append SKIPPED (test_repor...) [ 37%] tests/test_restart.py::test_read_after_close PASSED [ 37%] tests/test_restart.py::test_shape PASSED [ 37%] tests/test_restart.py::test_shape_2 PASSED [ 38%] tests/test_restart.py::test_read_write_1 PASSED [ 38%] tests/test_restart.py::test_read_write_2 PASSED [ 38%] tests/test_restart.py::test_read_write_3 PASSED [ 38%] tests/test_restart.py::test_read_write_4 PASSED [ 38%] tests/test_rmsd.py::test_trajectory_rmsd[superpose-parallel] PASSED [ 38%] tests/test_rmsd.py::test_trajectory_rmsd[superpose-serial] PASSED [ 38%] tests/test_rmsd.py::test_trajectory_rmsd[qcp-parallel] PASSED [ 38%] tests/test_rmsd.py::test_trajectory_rmsd[qcp-serial] PASSED [ 38%] tests/test_rmsd.py::test_precentered_1 PASSED [ 38%] tests/test_rmsd.py::test_precentered_2 PASSED [ 38%] tests/test_rmsd.py::test_superpose_0 PASSED [ 38%] tests/test_rmsd.py::test_superpose_1 PASSED [ 39%] tests/test_rmsd.py::test_superpose_2 PASSED [ 39%] tests/test_rmsd.py::test_superpose_refinds PASSED [ 39%] tests/test_rmsd.py::test_rmsd_atom_indices PASSED [ 39%] tests/test_rmsd.py::test_rmsd_ref_ainds_superpose[superpose] PASSED [ 39%] tests/test_rmsd.py::test_rmsd_ref_ainds_superpose[qcp] PASSED [ 39%] tests/test_rmsd.py::test_average_structure PASSED [ 39%] tests/test_rmsd.py::test_trajectory_rmsf PASSED [ 39%] tests/test_rmsd.py::test_trajectory_rmsf_aligned PASSED [ 39%] tests/test_rmsd.py::test_rmsd_atom_indices_vs_ref_indices PASSED [ 39%] tests/test_rmsd_memmap.py::test_1 PASSED [ 39%] tests/test_rmsd_memmap.py::test_2 PASSED [ 40%] tests/test_sasa.py::test_sasa_0 PASSED [ 40%] tests/test_sasa.py::test_sasa_1 PASSED [ 40%] tests/test_sasa.py::test_sasa_2 PASSED [ 40%] tests/test_sasa.py::test_sasa_3 PASSED [ 40%] tests/test_sasa.py::test_sasa_4 PASSED [ 40%] tests/test_sasa.py::test_sasa_5 PASSED [ 40%] tests/test_sasa.py::test_sasa_6 PASSED [ 40%] tests/test_sasa.py::test_sasa_7 PASSED [ 40%] tests/test_selection.py::test_range PASSED [ 40%] tests/test_selection.py::test_unary_2 PASSED [ 40%] tests/test_selection.py::test_unary_3 PASSED [ 41%] tests/test_selection.py::test_binary_1 PASSED [ 41%] tests/test_selection.py::test_binary_2 PASSED [ 41%] tests/test_selection.py::test_simple PASSED [ 41%] tests/test_selection.py::test_alias PASSED [ 41%] tests/test_selection.py::test_unary_1 PASSED [ 41%] tests/test_selection.py::test_binary_selection_operator PASSED [ 41%] tests/test_selection.py::test_raises PASSED [ 41%] tests/test_selection.py::test_raises2 PASSED [ 41%] tests/test_selection.py::test_bool PASSED [ 41%] tests/test_selection.py::test_nested_bool PASSED [ 41%] tests/test_selection.py::test_values PASSED [ 41%] tests/test_selection.py::test_element PASSED [ 42%] tests/test_selection.py::test_not PASSED [ 42%] tests/test_selection.py::test_re PASSED [ 42%] tests/test_selection.py::test_within SKIPPED (failed to parse selection) [ 42%] tests/test_selection.py::test_quotes PASSED [ 42%] tests/test_selection.py::test_top PASSED [ 42%] tests/test_selection.py::test_top_2 PASSED [ 42%] tests/test_selection.py::test_backbone PASSED [ 42%] tests/test_selection.py::test_sidechain PASSED [ 42%] tests/test_selection.py::test_literal PASSED [ 42%] tests/test_selection.py::test_in PASSED [ 42%] tests/test_shape.py::test_gyration PASSED [ 43%] tests/test_shape.py::test_principal_moments PASSED [ 43%] tests/test_shape.py::test_asphericity PASSED [ 43%] tests/test_shape.py::test_shape_metrics PASSED [ 43%] tests/test_thermodynamic_properties.py::test_volume PASSED [ 43%] tests/test_thermodynamic_properties.py::test_density PASSED [ 43%] tests/test_thermodynamic_properties.py::test_dipole_moments PASSED [ 43%] tests/test_thermodynamic_properties.py::test_static_dielectric PASSED [ 43%] tests/test_thermodynamic_properties.py::test_kappa PASSED [ 43%] tests/test_thermodynamic_properties.py::test_alpha SKIPPED (Thermal ...) [ 43%] tests/test_topology.py::test_topology_openmm SKIPPED (needs OpenMM) [ 43%] tests/test_topology.py::test_topology_openmm_preserve_chain_id_when_specified SKIPPED [ 43%] tests/test_topology.py::test_topology_openmm_roundtrip_chain_id SKIPPED [ 44%] tests/test_topology.py::test_topology_openmm_preserve_chain_id_even_when_empty SKIPPED [ 44%] tests/test_topology.py::test_topology_openmm_boxes SKIPPED (needs Op...) [ 44%] tests/test_topology.py::test_topology_openmm_formal_charges SKIPPED [ 44%] tests/test_topology.py::test_topology_dataframe_formal_charges PASSED [ 44%] tests/test_topology.py::test_topology_pandas PASSED [ 44%] tests/test_topology.py::test_topology_pandas_TIP4PEW PASSED [ 44%] tests/test_topology.py::test_topology_pandas_2residues_same_resSeq PASSED [ 44%] tests/test_topology.py::test_topology_numbers PASSED [ 44%] tests/test_topology.py::test_topology_unique_elements_bpti PASSED [ 44%] tests/test_topology.py::test_chain PASSED [ 44%] tests/test_topology.py::test_residue PASSED [ 45%] tests/test_topology.py::test_segment_id PASSED [ 45%] tests/test_topology.py::test_nonconsective_resSeq PASSED [ 45%] tests/test_topology.py::test_pickle PASSED [ 45%] tests/test_topology.py::test_atoms_by_name PASSED [ 45%] tests/test_topology.py::test_select_atom_indices PASSED [ 45%] tests/test_topology.py::test_top_dataframe_openmm_roundtrip SKIPPED [ 45%] tests/test_topology.py::test_n_bonds PASSED [ 45%] tests/test_topology.py::test_load_unknown_topology PASSED [ 45%] tests/test_topology.py::test_unique_pairs PASSED [ 45%] tests/test_topology.py::test_select_pairs PASSED [ 45%] tests/test_topology.py::test_to_fasta PASSED [ 46%] tests/test_topology.py::test_subset PASSED [ 46%] tests/test_topology.py::test_subset_re_index_residues PASSED [ 46%] tests/test_topology.py::test_molecules PASSED [ 46%] tests/test_topology.py::test_copy_and_hash PASSED [ 46%] tests/test_topology.py::test_copy[traj.h5] PASSED [ 46%] tests/test_topology.py::test_copy[1ply_charge.pdb] PASSED [ 46%] tests/test_topology.py::test_topology_sliced_residue_indices PASSED [ 46%] tests/test_topology.py::test_topology_join PASSED [ 46%] tests/test_topology.py::test_topology_join_keep_resSeq PASSED [ 46%] tests/test_topology.py::test_topology_join_formal_charge PASSED [ 46%] tests/test_topology.py::test_delete_atom_by_index PASSED [ 46%] tests/test_trajectory.py::test_mismatch PASSED [ 47%] tests/test_trajectory.py::test_box PASSED [ 47%] tests/test_trajectory.py::test_load_pdb_box PASSED [ 47%] tests/test_trajectory.py::test_load_pdb_gz PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[nc] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[h5] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[xtc] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[trr] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[dcd] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[mdcrd] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[dtr] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[xyz] SKIPPED (xyz does ...) [ 48%] tests/test_trajectory.py::test_box_load_save[xyz.gz] SKIPPED (xyz.gz...) [ 48%] tests/test_trajectory.py::test_box_load_save[lammpstrj] PASSED [ 48%] tests/test_trajectory.py::test_box_load_save[lh5] SKIPPED (lh5 does ...) [ 48%] tests/test_trajectory.py::test_box_load_save[pdb] SKIPPED (pdb does ...) [ 48%] tests/test_trajectory.py::test_box_load_save[pdb.gz] SKIPPED (pdb.gz...) [ 48%] tests/test_trajectory.py::test_box_load_save[ncrst] PASSED [ 48%] tests/test_trajectory.py::test_box_load_save[rst7] PASSED [ 48%] tests/test_trajectory.py::test_box_load_save[gro] PASSED [ 48%] tests/test_trajectory.py::test_slice PASSED [ 48%] tests/test_trajectory.py::test_slice2 PASSED [ 48%] tests/test_trajectory.py::test_read_path[nc] PASSED [ 48%] tests/test_trajectory.py::test_read_path[h5] PASSED [ 49%] tests/test_trajectory.py::test_read_path[xtc] PASSED [ 49%] tests/test_trajectory.py::test_read_path[trr] PASSED [ 49%] tests/test_trajectory.py::test_read_path[dcd] PASSED [ 49%] tests/test_trajectory.py::test_read_path[mdcrd] PASSED [ 49%] tests/test_trajectory.py::test_read_path[dtr] PASSED [ 49%] tests/test_trajectory.py::test_read_path[xyz] PASSED [ 49%] tests/test_trajectory.py::test_read_path[xyz.gz] PASSED [ 49%] tests/test_trajectory.py::test_read_path[lammpstrj] PASSED [ 49%] tests/test_trajectory.py::test_read_path[lh5] PASSED [ 49%] tests/test_trajectory.py::test_read_path[pdb] PASSED [ 49%] tests/test_trajectory.py::test_read_path[pdb.gz] PASSED [ 50%] tests/test_trajectory.py::test_read_path[ncrst] XFAIL (These referen...) [ 50%] tests/test_trajectory.py::test_read_path[rst7] XFAIL (These referenc...) [ 50%] tests/test_trajectory.py::test_read_path[gro] PASSED [ 50%] tests/test_trajectory.py::test_write_path[nc] PASSED [ 50%] tests/test_trajectory.py::test_write_path[h5] PASSED [ 50%] tests/test_trajectory.py::test_write_path[xtc] PASSED [ 50%] tests/test_trajectory.py::test_write_path[trr] PASSED [ 50%] tests/test_trajectory.py::test_write_path[dcd] PASSED [ 50%] tests/test_trajectory.py::test_write_path[mdcrd] SKIPPED (mdcrd can ...) [ 50%] tests/test_trajectory.py::test_write_path[dtr] PASSED [ 50%] tests/test_trajectory.py::test_write_path[xyz] PASSED [ 51%] tests/test_trajectory.py::test_write_path[xyz.gz] PASSED [ 51%] tests/test_trajectory.py::test_write_path[lammpstrj] PASSED [ 51%] tests/test_trajectory.py::test_write_path[lh5] PASSED [ 51%] tests/test_trajectory.py::test_write_path[pdb] PASSED [ 51%] tests/test_trajectory.py::test_write_path[pdb.gz] PASSED [ 51%] tests/test_trajectory.py::test_write_path[ncrst] SKIPPED (ncrst can ...) [ 51%] tests/test_trajectory.py::test_write_path[rst7] SKIPPED (rst7 can on...) [ 51%] tests/test_trajectory.py::test_write_path[gro] PASSED [ 51%] tests/test_trajectory.py::test_read_write[nc-nc] PASSED [ 51%] tests/test_trajectory.py::test_read_write[nc-h5] PASSED [ 51%] tests/test_trajectory.py::test_read_write[nc-xtc] PASSED [ 51%] tests/test_trajectory.py::test_read_write[nc-trr] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-dcd] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-mdcrd] SKIPPED (mdcrd c...) [ 52%] tests/test_trajectory.py::test_read_write[nc-dtr] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-xyz] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-xyz.gz] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-lammpstrj] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-lh5] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-pdb] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-pdb.gz] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-ncrst] SKIPPED (ncrst c...) [ 52%] tests/test_trajectory.py::test_read_write[nc-rst7] SKIPPED (rst7 can...) [ 53%] tests/test_trajectory.py::test_read_write[nc-gro] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-nc] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-h5] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-xtc] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-trr] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-dcd] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-mdcrd] SKIPPED (mdcrd c...) [ 53%] tests/test_trajectory.py::test_read_write[h5-dtr] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-xyz] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-xyz.gz] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-lammpstrj] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-lh5] PASSED [ 54%] tests/test_trajectory.py::test_read_write[h5-pdb] PASSED [ 54%] tests/test_trajectory.py::test_read_write[h5-pdb.gz] PASSED [ 54%] tests/test_trajectory.py::test_read_write[h5-ncrst] SKIPPED (ncrst c...) [ 54%] tests/test_trajectory.py::test_read_write[h5-rst7] SKIPPED (rst7 can...) [ 54%] tests/test_trajectory.py::test_read_write[h5-gro] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-nc] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-h5] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-xtc] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-trr] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-dcd] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-mdcrd] SKIPPED (mdcrd ...) [ 55%] tests/test_trajectory.py::test_read_write[xtc-dtr] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-xyz] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-xyz.gz] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-lammpstrj] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-lh5] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-pdb] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-pdb.gz] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-ncrst] SKIPPED (ncrst ...) [ 55%] tests/test_trajectory.py::test_read_write[xtc-rst7] SKIPPED (rst7 ca...) [ 55%] tests/test_trajectory.py::test_read_write[xtc-gro] PASSED [ 55%] tests/test_trajectory.py::test_read_write[trr-nc] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-h5] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-xtc] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-trr] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-dcd] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-mdcrd] SKIPPED (mdcrd ...) [ 56%] tests/test_trajectory.py::test_read_write[trr-dtr] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-xyz] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-xyz.gz] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-lammpstrj] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-lh5] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-pdb] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-pdb.gz] PASSED [ 57%] tests/test_trajectory.py::test_read_write[trr-ncrst] SKIPPED (ncrst ...) [ 57%] tests/test_trajectory.py::test_read_write[trr-rst7] SKIPPED (rst7 ca...) [ 57%] tests/test_trajectory.py::test_read_write[trr-gro] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-nc] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-h5] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-xtc] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-trr] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-dcd] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-mdcrd] SKIPPED (mdcrd ...) [ 57%] tests/test_trajectory.py::test_read_write[dcd-dtr] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-xyz] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-xyz.gz] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-lammpstrj] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-lh5] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-pdb] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-pdb.gz] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-ncrst] SKIPPED (ncrst ...) [ 58%] tests/test_trajectory.py::test_read_write[dcd-rst7] SKIPPED (rst7 ca...) [ 58%] tests/test_trajectory.py::test_read_write[dcd-gro] PASSED [ 58%] tests/test_trajectory.py::test_read_write[mdcrd-nc] PASSED [ 58%] tests/test_trajectory.py::test_read_write[mdcrd-h5] PASSED [ 58%] tests/test_trajectory.py::test_read_write[mdcrd-xtc] PASSED [ 58%] tests/test_trajectory.py::test_read_write[mdcrd-trr] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-dcd] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-mdcrd] SKIPPED (mdcr...) [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-dtr] SKIPPED (dtr ne...) [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-xyz] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-xyz.gz] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-lammpstrj] SKIPPED (...) [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-lh5] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-pdb] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-pdb.gz] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-ncrst] SKIPPED (ncrs...) [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-rst7] SKIPPED (rst7 ...) [ 60%] tests/test_trajectory.py::test_read_write[mdcrd-gro] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-nc] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-h5] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-xtc] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-trr] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-dcd] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-mdcrd] SKIPPED (mdcrd ...) [ 60%] tests/test_trajectory.py::test_read_write[dtr-dtr] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-xyz] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-xyz.gz] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-lammpstrj] PASSED [ 61%] tests/test_trajectory.py::test_read_write[dtr-lh5] PASSED [ 61%] tests/test_trajectory.py::test_read_write[dtr-pdb] PASSED [ 61%] tests/test_trajectory.py::test_read_write[dtr-pdb.gz] PASSED [ 61%] tests/test_trajectory.py::test_read_write[dtr-ncrst] SKIPPED (ncrst ...) [ 61%] tests/test_trajectory.py::test_read_write[dtr-rst7] SKIPPED (rst7 ca...) [ 61%] tests/test_trajectory.py::test_read_write[dtr-gro] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-nc] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-h5] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-xtc] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-trr] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-dcd] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-mdcrd] SKIPPED (mdcrd ...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-dtr] SKIPPED (dtr need...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-xyz] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-xyz.gz] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-lammpstrj] SKIPPED (la...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-lh5] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-pdb] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-pdb.gz] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-ncrst] SKIPPED (ncrst ...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-rst7] SKIPPED (rst7 ca...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-gro] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz.gz-nc] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-h5] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-xtc] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-trr] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-dcd] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-mdcrd] SKIPPED (mdc...) [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-dtr] SKIPPED (dtr n...) [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-xyz] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-xyz.gz] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-lammpstrj] SKIPPED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-lh5] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-pdb] PASSED [ 64%] tests/test_trajectory.py::test_read_write[xyz.gz-pdb.gz] PASSED [ 64%] tests/test_trajectory.py::test_read_write[xyz.gz-ncrst] SKIPPED (ncr...) [ 64%] tests/test_trajectory.py::test_read_write[xyz.gz-rst7] SKIPPED (rst7...) [ 64%] tests/test_trajectory.py::test_read_write[xyz.gz-gro] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-nc] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-h5] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-xtc] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-trr] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-dcd] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-mdcrd] SKIPPED (...) [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-dtr] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-xyz] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-xyz.gz] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-lammpstrj] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-lh5] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-pdb] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-pdb.gz] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-ncrst] SKIPPED (...) [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-rst7] SKIPPED (r...) [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-gro] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lh5-nc] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lh5-h5] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lh5-xtc] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-trr] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-dcd] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-mdcrd] SKIPPED (mdcrd ...) [ 66%] tests/test_trajectory.py::test_read_write[lh5-dtr] SKIPPED (dtr need...) [ 66%] tests/test_trajectory.py::test_read_write[lh5-xyz] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-xyz.gz] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-lammpstrj] SKIPPED (la...) [ 66%] tests/test_trajectory.py::test_read_write[lh5-lh5] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-pdb] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-pdb.gz] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-ncrst] SKIPPED (ncrst ...) [ 66%] tests/test_trajectory.py::test_read_write[lh5-rst7] SKIPPED (rst7 ca...) [ 67%] tests/test_trajectory.py::test_read_write[lh5-gro] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-nc] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-h5] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-xtc] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-trr] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-dcd] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-mdcrd] SKIPPED (mdcrd ...) [ 67%] tests/test_trajectory.py::test_read_write[pdb-dtr] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-xyz] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-xyz.gz] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-lammpstrj] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb-lh5] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb-pdb] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb-pdb.gz] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb-ncrst] SKIPPED (ncrst ...) [ 68%] tests/test_trajectory.py::test_read_write[pdb-rst7] SKIPPED (rst7 ca...) [ 68%] tests/test_trajectory.py::test_read_write[pdb-gro] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-nc] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-h5] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-xtc] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-trr] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-dcd] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-mdcrd] SKIPPED (mdc...) [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-dtr] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-xyz] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-xyz.gz] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-lammpstrj] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-lh5] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-pdb] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-pdb.gz] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-ncrst] SKIPPED (ncr...) [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-rst7] SKIPPED (rst7...) [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-gro] PASSED [ 69%] tests/test_trajectory.py::test_read_write[ncrst-nc] XFAIL (These ref...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-h5] XFAIL (These ref...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-xtc] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-trr] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-dcd] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-mdcrd] XFAIL (These ...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-dtr] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-xyz] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-xyz.gz] XFAIL (These...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-lammpstrj] XFAIL (Th...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-lh5] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-pdb] XFAIL (These re...) [ 71%] tests/test_trajectory.py::test_read_write[ncrst-pdb.gz] XFAIL (These...) [ 71%] tests/test_trajectory.py::test_read_write[ncrst-ncrst] XFAIL (These ...) [ 71%] tests/test_trajectory.py::test_read_write[ncrst-rst7] XFAIL (These r...) [ 71%] tests/test_trajectory.py::test_read_write[ncrst-gro] XFAIL (These re...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-nc] XFAIL (These refe...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-h5] XFAIL (These refe...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-xtc] XFAIL (These ref...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-trr] XFAIL (These ref...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-dcd] XFAIL (These ref...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-mdcrd] XFAIL (These r...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-dtr] XFAIL (These ref...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-xyz] XFAIL (These ref...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-xyz.gz] XFAIL (These ...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-lammpstrj] XFAIL (The...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-lh5] XFAIL (These ref...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-pdb] XFAIL (These ref...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-pdb.gz] XFAIL (These ...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-ncrst] XFAIL (These r...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-rst7] XFAIL (These re...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-gro] XFAIL (These ref...) [ 72%] tests/test_trajectory.py::test_read_write[gro-nc] PASSED [ 72%] tests/test_trajectory.py::test_read_write[gro-h5] PASSED [ 72%] tests/test_trajectory.py::test_read_write[gro-xtc] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-trr] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-dcd] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-mdcrd] SKIPPED (mdcrd ...) [ 73%] tests/test_trajectory.py::test_read_write[gro-dtr] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-xyz] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-xyz.gz] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-lammpstrj] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-lh5] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-pdb] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-pdb.gz] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-ncrst] SKIPPED (ncrst ...) [ 74%] tests/test_trajectory.py::test_read_write[gro-rst7] SKIPPED (rst7 ca...) [ 74%] tests/test_trajectory.py::test_read_write[gro-gro] PASSED [ 74%] tests/test_trajectory.py::test_load[nc] PASSED [ 74%] tests/test_trajectory.py::test_load[h5] PASSED [ 74%] tests/test_trajectory.py::test_load[xtc] PASSED [ 74%] tests/test_trajectory.py::test_load[trr] PASSED [ 74%] tests/test_trajectory.py::test_load[dcd] PASSED [ 74%] tests/test_trajectory.py::test_load[mdcrd] PASSED [ 74%] tests/test_trajectory.py::test_load[dtr] PASSED [ 74%] tests/test_trajectory.py::test_load[xyz] PASSED [ 74%] tests/test_trajectory.py::test_load[xyz.gz] PASSED [ 74%] tests/test_trajectory.py::test_load[lammpstrj] PASSED [ 75%] tests/test_trajectory.py::test_load[lh5] PASSED [ 75%] tests/test_trajectory.py::test_load[pdb] PASSED [ 75%] tests/test_trajectory.py::test_load[pdb.gz] PASSED [ 75%] tests/test_trajectory.py::test_load[ncrst] XFAIL (These reference fi...) [ 75%] tests/test_trajectory.py::test_load[rst7] XFAIL (These reference fil...) [ 75%] tests/test_trajectory.py::test_load[gro] PASSED [ 75%] tests/test_trajectory.py::test_hdf5 PASSED [ 75%] tests/test_trajectory.py::test_center PASSED [ 75%] tests/test_trajectory.py::test_center_aind PASSED [ 75%] tests/test_trajectory.py::test_float_atom_indices_exception[nc] PASSED [ 75%] tests/test_trajectory.py::test_float_atom_indices_exception[h5] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[xtc] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[trr] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[dcd] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[mdcrd] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[dtr] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[xyz] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[xyz.gz] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[lammpstrj] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[lh5] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[pdb] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[pdb.gz] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[ncrst] XFAIL [ 77%] tests/test_trajectory.py::test_float_atom_indices_exception[rst7] XFAIL [ 77%] tests/test_trajectory.py::test_float_atom_indices_exception[gro] PASSED [ 77%] tests/test_trajectory.py::test_restrict_atoms PASSED [ 77%] tests/test_trajectory.py::test_restrict_atoms_not_inplace PASSED [ 77%] tests/test_trajectory.py::test_array_vs_matrix PASSED [ 77%] tests/test_trajectory.py::test_pdb_unitcell_loadsave PASSED [ 77%] tests/test_trajectory.py::test_load_combination[nc] PASSED [ 77%] tests/test_trajectory.py::test_load_combination[h5] PASSED [ 77%] tests/test_trajectory.py::test_load_combination[xtc] PASSED [ 77%] tests/test_trajectory.py::test_load_combination[trr] PASSED [ 77%] tests/test_trajectory.py::test_load_combination[dcd] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[mdcrd] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[dtr] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[xyz] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[xyz.gz] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[lammpstrj] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[lh5] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[pdb] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[pdb.gz] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[ncrst] XFAIL (These ...) [ 78%] tests/test_trajectory.py::test_load_combination[rst7] XFAIL (These r...) [ 78%] tests/test_trajectory.py::test_load_combination[gro] PASSED [ 79%] tests/test_trajectory.py::test_no_topology PASSED [ 79%] tests/test_trajectory.py::test_join PASSED [ 79%] tests/test_trajectory.py::test_md_join PASSED [ 79%] tests/test_trajectory.py::test_stack_1 PASSED [ 79%] tests/test_trajectory.py::test_stack_2 PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[nc] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[h5] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[xtc] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[trr] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[dcd] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[mdcrd] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[dtr] PASSED [ 80%] tests/test_trajectory.py::test_seek_read_mode[xyz] PASSED [ 80%] tests/test_trajectory.py::test_seek_read_mode[xyz.gz] XFAIL (This is...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[lammpstrj] PASSED [ 80%] tests/test_trajectory.py::test_seek_read_mode[lh5] PASSED [ 80%] tests/test_trajectory.py::test_seek_read_mode[pdb] XFAIL (PDB Files ...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[pdb.gz] XFAIL (PDB Fil...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[ncrst] XFAIL (These re...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[rst7] XFAIL (These ref...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[gro] XFAIL (This is br...) [ 80%] tests/test_trajectory.py::test_load_frame[nc] PASSED [ 80%] tests/test_trajectory.py::test_load_frame[h5] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[xtc] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[trr] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[dcd] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[mdcrd] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[dtr] XFAIL (DTR doesn't lo...) [ 81%] tests/test_trajectory.py::test_load_frame[xyz] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[xyz.gz] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[lammpstrj] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[lh5] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[pdb] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[pdb.gz] PASSED [ 82%] tests/test_trajectory.py::test_load_frame[ncrst] XFAIL (These refere...) [ 82%] tests/test_trajectory.py::test_load_frame[rst7] XFAIL (These referen...) [ 82%] tests/test_trajectory.py::test_load_frame[gro] XFAIL (Gro doesn't im...) [ 82%] tests/test_trajectory.py::test_load_frame_2eqq PASSED [ 82%] tests/test_trajectory.py::test_iterload[nc] PASSED [ 82%] tests/test_trajectory.py::test_iterload[h5] PASSED [ 82%] tests/test_trajectory.py::test_iterload[xtc] PASSED [ 82%] tests/test_trajectory.py::test_iterload[trr] PASSED [ 82%] tests/test_trajectory.py::test_iterload[dcd] PASSED [ 82%] tests/test_trajectory.py::test_iterload[mdcrd] PASSED [ 82%] tests/test_trajectory.py::test_iterload[dtr] XFAIL (This is broken w...) [ 82%] tests/test_trajectory.py::test_iterload[xyz] PASSED [ 83%] tests/test_trajectory.py::test_iterload[xyz.gz] PASSED [ 83%] tests/test_trajectory.py::test_iterload[lammpstrj] PASSED [ 83%] tests/test_trajectory.py::test_iterload[lh5] PASSED [ 83%] tests/test_trajectory.py::test_iterload[pdb] PASSED [ 83%] tests/test_trajectory.py::test_iterload[pdb.gz] PASSED [ 83%] tests/test_trajectory.py::test_iterload[ncrst] SKIPPED (Only 1 frame...) [ 83%] tests/test_trajectory.py::test_iterload[rst7] SKIPPED (Only 1 frame ...) [ 83%] tests/test_trajectory.py::test_iterload[gro] PASSED [ 83%] tests/test_trajectory.py::test_iterload_skip[nc] PASSED [ 83%] tests/test_trajectory.py::test_iterload_skip[h5] PASSED [ 83%] tests/test_trajectory.py::test_iterload_skip[xtc] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[trr] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[dcd] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[mdcrd] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[dtr] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[xyz] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[xyz.gz] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[lammpstrj] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[lh5] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[pdb] XFAIL (PDB Iterloa...) [ 84%] tests/test_trajectory.py::test_iterload_skip[pdb.gz] XFAIL (PDB Iter...) [ 84%] tests/test_trajectory.py::test_iterload_skip[ncrst] XFAIL (These ref...) [ 84%] tests/test_trajectory.py::test_iterload_skip[rst7] XFAIL (These refe...) [ 85%] tests/test_trajectory.py::test_iterload_skip[gro] XFAIL (Not impleme...) [ 85%] tests/test_trajectory.py::test_iterload_chunk_dcd PASSED [ 85%] tests/test_trajectory.py::test_save_load[nc] PASSED [ 85%] tests/test_trajectory.py::test_save_load[h5] PASSED [ 85%] tests/test_trajectory.py::test_save_load[xtc] PASSED [ 85%] tests/test_trajectory.py::test_save_load[trr] PASSED [ 85%] tests/test_trajectory.py::test_save_load[dcd] PASSED [ 85%] tests/test_trajectory.py::test_save_load[mdcrd] PASSED [ 85%] tests/test_trajectory.py::test_save_load[dtr] PASSED [ 85%] tests/test_trajectory.py::test_save_load[xyz] PASSED [ 85%] tests/test_trajectory.py::test_save_load[xyz.gz] PASSED [ 86%] tests/test_trajectory.py::test_save_load[lammpstrj] PASSED [ 86%] tests/test_trajectory.py::test_save_load[lh5] PASSED [ 86%] tests/test_trajectory.py::test_save_load[pdb] PASSED [ 86%] tests/test_trajectory.py::test_save_load[pdb.gz] PASSED [ 86%] tests/test_trajectory.py::test_save_load[ncrst] PASSED [ 86%] tests/test_trajectory.py::test_save_load[rst7] PASSED [ 86%] tests/test_trajectory.py::test_save_load[gro] PASSED [ 86%] tests/test_trajectory.py::test_force_overwrite[nc] PASSED [ 86%] tests/test_trajectory.py::test_force_overwrite[h5] PASSED [ 86%] tests/test_trajectory.py::test_force_overwrite[xtc] PASSED [ 86%] tests/test_trajectory.py::test_force_overwrite[trr] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[dcd] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[mdcrd] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[dtr] XFAIL (This is b...) [ 87%] tests/test_trajectory.py::test_force_overwrite[xyz] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[xyz.gz] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[lammpstrj] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[lh5] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[pdb] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[pdb.gz] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[ncrst] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[rst7] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[gro] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[nc] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[h5] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[xtc] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[trr] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[dcd] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[mdcrd] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[dtr] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[xyz] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[xyz.gz] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[lammpstrj] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[lh5] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[pdb] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[pdb.gz] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[ncrst] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[rst7] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[gro] PASSED [ 89%] tests/test_trajectory.py::test_open_and_load PASSED [ 89%] tests/test_trajectory.py::test_length PASSED [ 89%] tests/test_trajectory.py::test_unitcell[nc] PASSED [ 89%] tests/test_trajectory.py::test_unitcell[h5] PASSED [ 89%] tests/test_trajectory.py::test_unitcell[xtc] PASSED [ 89%] tests/test_trajectory.py::test_unitcell[trr] PASSED [ 89%] tests/test_trajectory.py::test_unitcell[dcd] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[mdcrd] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[dtr] XFAIL (dtr seems to nee...) [ 90%] tests/test_trajectory.py::test_unitcell[xyz] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[xyz.gz] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[lammpstrj] XFAIL (lammpstrj ...) [ 90%] tests/test_trajectory.py::test_unitcell[lh5] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[pdb] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[pdb.gz] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[ncrst] XFAIL (ncrst seems to...) [ 90%] tests/test_trajectory.py::test_unitcell[rst7] XFAIL (rst7 seems to n...) [ 90%] tests/test_trajectory.py::test_unitcell[gro] PASSED [ 91%] tests/test_trajectory.py::test_chunk0_iterload PASSED [ 91%] tests/test_trajectory.py::test_hashing PASSED [ 91%] tests/test_trajectory.py::test_smooth PASSED [ 91%] tests/test_trajectory.py::test_make_whole PASSED [ 91%] tests/test_trajectory.py::test_load_pdb_no_standard_names PASSED [ 91%] tests/test_trajectory.py::test_load_with_atom_indices PASSED [ 91%] tests/test_trajectory.py::test_atom_slicing PASSED [ 91%] tests/test_trajectory.py::test_load_with_frame PASSED [ 91%] tests/test_trajectory.py::test_add_remove_atoms PASSED [ 91%] tests/test_trr.py::test_1 PASSED [ 91%] tests/test_trr.py::test_read_stride PASSED [ 92%] tests/test_trr.py::test_read_stride_n_frames PASSED [ 92%] tests/test_trr.py::test_read_stride_offsets PASSED [ 92%] tests/test_trr.py::test_read_stride_n_frames_offsets PASSED [ 92%] tests/test_trr.py::test_read_stride_switching PASSED [ 92%] tests/test_trr.py::test_write_read PASSED [ 92%] tests/test_trr.py::test_read_atomindices_1 PASSED [ 92%] tests/test_trr.py::test_read_atomindices_2 PASSED [ 92%] tests/test_trr.py::test_deficient_shape PASSED [ 92%] tests/test_trr.py::test_ragged_1 PASSED [ 92%] tests/test_trr.py::test_ragged_2 PASSED [ 92%] tests/test_trr.py::test_malformed PASSED [ 92%] tests/test_trr.py::test_tell PASSED [ 93%] tests/test_trr.py::test_seek PASSED [ 93%] tests/test_trr.py::test_get_velocities PASSED [ 93%] tests/test_trr.py::test_get_forces PASSED [ 93%] tests/test_trr.py::test_get_velocities_and_forces PASSED [ 93%] tests/test_trr.py::test_get_velocities_forces_atom_indices_1 PASSED [ 93%] tests/test_trr.py::test_get_velocities_forces_atom_indices_2 PASSED [ 93%] tests/test_trr.py::test_read_velocities_do_not_exist PASSED [ 93%] tests/test_trr.py::test_read_forces_do_not_exist PASSED [ 93%] tests/test_unitcell.py::Test_Unitcell::test_valid[orthogonal] PASSED [ 93%] tests/test_unitcell.py::Test_Unitcell::test_valid[triclinic] PASSED [ 93%] tests/test_unitcell.py::Test_Unitcell::test_invalid_over360[over360] PASSED [ 94%] tests/test_unitcell.py::Test_Unitcell::test_invalid_over360[close] PASSED [ 94%] tests/test_unitcell.py::Test_Unitcell::test_valid_array PASSED [ 94%] tests/test_unitcell.py::Test_Unitcell::test_invalid_over360_array PASSED [ 94%] tests/test_unitcell.py::Test_Unitcell::test_invalid_angles_close_array PASSED [ 94%] tests/test_utils.py::test_unitcell_0 PASSED [ 94%] tests/test_utils.py::test_unitcell_1 PASSED [ 94%] tests/test_utils.py::test_ensure_type_1 PASSED [ 94%] tests/test_utils.py::test_ensure_type_2 PASSED [ 94%] tests/test_utils.py::test_ensure_type_25 PASSED [ 94%] tests/test_utils.py::test_ensure_type_3 PASSED [ 94%] tests/test_utils.py::test_ensure_type_4 PASSED [ 94%] tests/test_utils.py::test_ensure_type_5 PASSED [ 95%] tests/test_utils.py::test_ensure_type_6 PASSED [ 95%] tests/test_utils.py::test_ensure_type_7 PASSED [ 95%] tests/test_utils.py::test_ensure_type_8 PASSED [ 95%] tests/test_utils.py::test_ensure_type_9 PASSED [ 95%] tests/test_utils.py::test_ensure_type_10 PASSED [ 95%] tests/test_utils.py::test_ensure_type_11 PASSED [ 95%] tests/test_utils.py::test_ensure_type_12 PASSED [ 95%] tests/test_utils.py::test_ensure_type_13 PASSED [ 95%] tests/test_utils.py::test_ensure_type_14 PASSED [ 95%] tests/test_utils.py::test_ensure_type_15 PASSED [ 95%] tests/test_utils.py::test_delay_import_fail_1 PASSED [ 96%] tests/test_utils.py::test_delay_import PASSED [ 96%] tests/test_utils.py::test_unit_0 PASSED [ 96%] tests/test_utils.py::test_unit_1 PASSED [ 96%] tests/test_utils.py::test_unit_2 PASSED [ 96%] tests/test_utils.py::test_unit_3 PASSED [ 96%] tests/test_xml.py::test_xml PASSED [ 96%] tests/test_xtc.py::test_read_chunk1 PASSED [ 96%] tests/test_xtc.py::test_read_stride PASSED [ 96%] tests/test_xtc.py::test_read_stride_n_frames PASSED [ 96%] tests/test_xtc.py::test_read_stride_offsets PASSED [ 96%] tests/test_xtc.py::test_read_stride_n_frames_offsets PASSED [ 97%] tests/test_xtc.py::test_read_stride_switching_offsets PASSED [ 97%] tests/test_xtc.py::test_read_atomindices_1 PASSED [ 97%] tests/test_xtc.py::test_read_atomindices_w_stride PASSED [ 97%] tests/test_xtc.py::test_read_atomindices_2 PASSED [ 97%] tests/test_xtc.py::test_read_chunk2 PASSED [ 97%] tests/test_xtc.py::test_read_chunk3 PASSED [ 97%] tests/test_xtc.py::test_write_0 PASSED [ 97%] tests/test_xtc.py::test_write_1 PASSED [ 97%] tests/test_xtc.py::test_write_2 PASSED [ 97%] tests/test_xtc.py::test_read_error_0 PASSED [ 97%] tests/test_xtc.py::test_write_error_0 PASSED [ 97%] tests/test_xtc.py::test_read_error_1 PASSED [ 98%] tests/test_xtc.py::test_read_error_2 PASSED [ 98%] tests/test_xtc.py::test_xtc_write_wierd_0 PASSED [ 98%] tests/test_xtc.py::test_tell PASSED [ 98%] tests/test_xtc.py::test_seek PASSED [ 98%] tests/test_xtc.py::test_seek_natoms9 PASSED [ 98%] tests/test_xtc.py::test_seek_out_of_bounds PASSED [ 98%] tests/test_xtc.py::test_ragged_1 PASSED [ 98%] tests/test_xtc.py::test_ragged_2 PASSED [ 98%] tests/test_xtc.py::test_short_traj PASSED [ 98%] tests/test_xtc.py::test_flush PASSED [ 98%] tests/test_xyz.py::test_read_0 PASSED [ 99%] tests/test_xyz.py::test_read_1 PASSED [ 99%] tests/test_xyz.py::test_read_gz PASSED [ 99%] tests/test_xyz.py::test_read_write PASSED [ 99%] tests/test_xyz.py::test_mdwrite PASSED [ 99%] tests/test_xyz.py::test_multiread PASSED [ 99%] tests/test_xyz.py::test_seek PASSED [ 99%] tests/test_xyz.py::test_len PASSED [ 99%] tests/test_zipped.py::test_read_gz PASSED [ 99%] tests/test_zipped.py::test_write_gz PASSED [ 99%] tests/test_zipped.py::test_read_bz2 PASSED [ 99%] tests/test_zipped.py::test_write_bz2 PASSED [100%] =============================== warnings summary =============================== tests/test_distance.py::Test_Distance::test_6 :491: RuntimeWarning: numpy.ndarray size changed, may indicate binary incompatibility. Expected 8 from C header, got 48 from PyObject -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html =========================== short test summary info ============================ SKIPPED [1] tests/test_dihedral.py:56: pymol executable not found SKIPPED [1] tests/test_dihedral.py:181: pymol executable not found SKIPPED [15] tests/test_docstrings.py:38: Skip checking certain modules' docstrings SKIPPED [1] tests/test_geometry.py:300: Not doing performance testing SKIPPED [1] tests/test_geometry.py:322: Not doing performance testing SKIPPED [1] tests/test_hdf5.py:105: requires openmm.units SKIPPED [1] tests/test_hdf5.py:156: requires openmm.units SKIPPED [1] tests/test_hdf5.py:223: requires openmm.units SKIPPED [1] tests/test_mol2.py:59: Requires obabel SKIPPED [1] tests/test_netcdf.py:274: This test requires cpptraj from AmberTools to be installed (http://ambermd.org) SKIPPED [1] tests/test_nmr.py:11: SPARTA+ binary not found SKIPPED [1] tests/test_nmr.py:26: PPM binary not found SKIPPED [1] tests/test_nmr.py:42: SHIFTX2 binary not found or running on travis. SKIPPED [2] tests/test_psf.py:93: This test requires the VMD executable: http://www.ks.uiuc.edu/Research/vmd/ SKIPPED [1] tests/test_rdf.py:64: Binning does not match up with gromacs currently. SKIPPED [1] tests/test_rdf.py:200: Binning does not match up with gromacs currently. SKIPPED [1] tests/test_reporter.py:58: test_reporter.py needs OpenMM. SKIPPED [1] tests/test_reporter.py:145: test_reporter.py needs OpenMM. SKIPPED [1] tests/test_reporter.py:245: test_reporter.py needs OpenMM. SKIPPED [1] tests/test_selection.py:267: failed to parse selection SKIPPED [1] tests/test_thermodynamic_properties.py:161: Thermal expansion test doesn't work. SKIPPED [1] tests/test_topology.py:49: needs OpenMM SKIPPED [1] tests/test_topology.py:66: needs OpenMM SKIPPED [1] tests/test_topology.py:76: needs OpenMM SKIPPED [1] tests/test_topology.py:85: needs OpenMM SKIPPED [1] tests/test_topology.py:95: needs OpenMM SKIPPED [1] tests/test_topology.py:102: requires openmm >= 8.2 SKIPPED [1] tests/test_topology.py:284: needs OpenMM SKIPPED [1] tests/test_trajectory.py:129: xyz does not store box information SKIPPED [1] tests/test_trajectory.py:129: xyz.gz does not store box information SKIPPED [1] tests/test_trajectory.py:129: lh5 does not store box information SKIPPED [1] tests/test_trajectory.py:129: pdb does not store box information SKIPPED [1] tests/test_trajectory.py:129: pdb.gz does not store box information SKIPPED [1] tests/test_trajectory.py:225: mdcrd can only store rectilinear boxes SKIPPED [1] tests/test_trajectory.py:223: ncrst can only store 1 frame per file SKIPPED [1] tests/test_trajectory.py:223: rst7 can only store 1 frame per file SKIPPED [14] tests/test_trajectory.py:247: mdcrd can only store rectilinear boxes SKIPPED [14] tests/test_trajectory.py:245: ncrst can only store 1 frame per file SKIPPED [14] tests/test_trajectory.py:245: rst7 can only store 1 frame per file SKIPPED [4] tests/test_trajectory.py:255: dtr needs to write unitcells SKIPPED [4] tests/test_trajectory.py:255: lammpstrj needs to write unitcells SKIPPED [2] tests/test_trajectory.py:641: Only 1 frame per file format XFAIL tests/test_trajectory.py::test_read_path[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_path[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-nc] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-h5] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-xtc] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-trr] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-dcd] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-mdcrd] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-dtr] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-xyz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-xyz.gz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-lammpstrj] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-lh5] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-pdb] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-pdb.gz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-gro] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-nc] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-h5] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-xtc] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-trr] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-dcd] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-mdcrd] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-dtr] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-xyz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-xyz.gz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-lammpstrj] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-lh5] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-pdb] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-pdb.gz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-gro] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_float_atom_indices_exception[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_float_atom_indices_exception[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load_combination[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load_combination[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_seek_read_mode[xyz.gz] - This is broken XFAIL tests/test_trajectory.py::test_seek_read_mode[pdb] - PDB Files don't support seeking XFAIL tests/test_trajectory.py::test_seek_read_mode[pdb.gz] - PDB Files don't support seeking XFAIL tests/test_trajectory.py::test_seek_read_mode[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_seek_read_mode[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_seek_read_mode[gro] - This is broken XFAIL tests/test_trajectory.py::test_load_frame[dtr] - DTR doesn't load a single frame properly XFAIL tests/test_trajectory.py::test_load_frame[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load_frame[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load_frame[gro] - Gro doesn't implement seek XFAIL tests/test_trajectory.py::test_iterload[dtr] - This is broken with dtr XFAIL tests/test_trajectory.py::test_iterload_skip[pdb] - PDB Iterloads an extra frame!! XFAIL tests/test_trajectory.py::test_iterload_skip[pdb.gz] - PDB Iterloads an extra frame!! XFAIL tests/test_trajectory.py::test_iterload_skip[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_iterload_skip[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_iterload_skip[gro] - Not implemented for some reason XFAIL tests/test_trajectory.py::test_force_overwrite[dtr] - This is broken with dtr XFAIL tests/test_trajectory.py::test_unitcell[dtr] - dtr seems to need unit vectors XFAIL tests/test_trajectory.py::test_unitcell[lammpstrj] - lammpstrj seems to need unit vectors XFAIL tests/test_trajectory.py::test_unitcell[ncrst] - ncrst seems to need unit vectors XFAIL tests/test_trajectory.py::test_unitcell[rst7] - rst7 seems to need unit vectors = 975 passed, 103 skipped, 22 deselected, 61 xfailed, 1 warning in 225.40s (0:03:45) = lugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) I: pybuild base:317: cd /build/reproducible-path/mdtraj-1.11.0/.pybuild/cpython3_3.13_mdtraj/build; python3.13 -m pytest -k 'not (mdconvert or pi_stacking.ipynb or nmr.ipynb or test_image_molecules) and not (test_3 or test_pdb_from_url or test_1vii_url_and_gz)' ============================= test session starts ============================== platform linux -- Python 3.13.11, pytest-8.4.2, pluggy-1.6.0 -- /usr/bin/python3.13 cachedir: .pytest_cache rootdir: /build/reproducible-path/mdtraj-1.11.0/.pybuild/cpython3_3.13_mdtraj/build configfile: pyproject.toml testpaths: tests, examples plugins: typeguard-4.4.4, rerunfailures-16.1 collecting ... collected 1161 items / 22 deselected / 1139 selected tests/test_alignment.py::test_rmsd_zero PASSED [ 0%] tests/test_alignment.py::test_rmsd_nonzero PASSED [ 0%] tests/test_alignment.py::test_transform PASSED [ 0%] tests/test_alignment.py::test_transform2 PASSED [ 0%] tests/test_angles.py::test_angle_pbc_0 PASSED [ 0%] tests/test_angles.py::test_generator PASSED [ 0%] tests/test_angles.py::test_angle_180[True] PASSED [ 0%] tests/test_angles.py::test_angle_180[False] PASSED [ 0%] tests/test_arc.py::test_read_0 PASSED [ 0%] tests/test_arc.py::test_read_arctraj PASSED [ 0%] tests/test_arc.py::test_read_arctraj_top PASSED [ 0%] tests/test_arc.py::test_read_pbc PASSED [ 1%] tests/test_capi.py::test_1 PASSED [ 1%] tests/test_contact.py::test_contact_0 PASSED [ 1%] tests/test_contact.py::test_contact_1 PASSED [ 1%] tests/test_contact.py::test_contact_2 PASSED [ 1%] tests/test_contact.py::test_contact_3 PASSED [ 1%] tests/test_contact.py::test_contact_4 PASSED [ 1%] tests/test_crd.py::test_prmtop_with_overflow_mdcrd PASSED [ 1%] tests/test_dcd.py::test_read PASSED [ 1%] tests/test_dcd.py::test_read_2 PASSED [ 1%] tests/test_dcd.py::test_read_stride PASSED [ 1%] tests/test_dcd.py::test_read_stride_2 PASSED [ 2%] tests/test_dcd.py::test_read_3 PASSED [ 2%] tests/test_dcd.py::test_read_4 PASSED [ 2%] tests/test_dcd.py::test_read_5 PASSED [ 2%] tests/test_dcd.py::test_read_6 PASSED [ 2%] tests/test_dcd.py::test_write_0 PASSED [ 2%] tests/test_dcd.py::test_write_1 PASSED [ 2%] tests/test_dcd.py::test_write_2 PASSED [ 2%] tests/test_dcd.py::test_write_3 PASSED [ 2%] tests/test_dcd.py::test_write_4 PASSED [ 2%] tests/test_dcd.py::test_do_overwrite PASSED [ 2%] tests/test_dcd.py::test_dont_overwrite PASSED [ 2%] tests/test_dcd.py::test_read_closed PASSED [ 3%] tests/test_dcd.py::test_write_closed PASSED [ 3%] tests/test_dcd.py::test_tell PASSED [ 3%] tests/test_dcd.py::test_seek PASSED [ 3%] tests/test_dcd.py::test_ragged_1 PASSED [ 3%] tests/test_dcd.py::test_ragged_2 PASSED [ 3%] tests/test_dihedral.py::test_compute_phi PASSED [ 3%] tests/test_dihedral.py::test_compute_psi PASSED [ 3%] tests/test_dihedral.py::test_compute_chi SKIPPED (pymol executable n...) [ 3%] tests/test_dihedral.py::test_compute_omega PASSED [ 3%] tests/test_dihedral.py::test_shape_when_none PASSED [ 3%] tests/test_dihedral.py::test_dihedral_1 SKIPPED (pymol executable no...) [ 4%] tests/test_dihedral.py::test_dihedral_2chains PASSED [ 4%] tests/test_dihedral.py::test_generator PASSED [ 4%] tests/test_distance.py::Test_Distance::test_generator PASSED [ 4%] tests/test_distance.py::Test_Distance::test_0 PASSED [ 4%] tests/test_distance.py::Test_Distance::test_compute_distances_core_nonperiodic PASSED [ 4%] tests/test_distance.py::Test_Distance::test_compute_distances_core_periodic PASSED [ 4%] tests/test_distance.py::Test_Distance::test_1 PASSED [ 4%] tests/test_distance.py::Test_Distance::test_2 PASSED [ 4%] tests/test_distance.py::Test_Distance::test_0p PASSED [ 4%] tests/test_distance.py::Test_Distance::test_1p PASSED [ 4%] tests/test_distance.py::Test_Distance::test_2p PASSED [ 5%] tests/test_distance.py::Test_Distance::test_4 PASSED [ 5%] tests/test_distance.py::Test_Distance::test_5 PASSED [ 5%] tests/test_distance.py::Test_Distance::test_6 PASSED [ 5%] tests/test_distance.py::Test_Distance::test_7 PASSED [ 5%] tests/test_distance.py::Test_Distance::test_closest_contact PASSED [ 5%] tests/test_distance.py::Test_Distance::test_distance_nan PASSED [ 5%] tests/test_distance.py::Test_Distance::test_closest_contact_nan_pos PASSED [ 5%] tests/test_distance.py::Test_Distance::test_distance_t_inputs PASSED [ 5%] tests/test_distance.py::Test_Distance::test_distances_t PASSED [ 5%] tests/test_distance.py::Test_Distance::test_distances_t_at_0 PASSED [ 5%] tests/test_distance.py::Test_Distance::test_amber_t PASSED [ 5%] tests/test_docstrings.py::test_docstrings[mdtraj._lprmsd] PASSED [ 6%] tests/test_docstrings.py::test_docstrings[mdtraj._rmsd] PASSED [ 6%] tests/test_docstrings.py::test_docstrings[mdtraj._version] SKIPPED (...) 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tests/test_mol2.py::test_mol2_element_name PASSED [ 26%] tests/test_mol2.py::test_load_all_mol2[li.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[lysozyme-ligand-tripos.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[imatinib.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[status-bits.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[adp.mol2] PASSED [ 27%] tests/test_mol2.py::test_load_all_mol2[water_acn.mol2] PASSED [ 27%] tests/test_mol2.py::test_mol2_n_residues PASSED [ 27%] tests/test_neighborlist.py::test_nonperiodic PASSED [ 27%] tests/test_neighborlist.py::test_periodic PASSED [ 27%] tests/test_neighborlist.py::test_triclinic PASSED [ 27%] tests/test_neighbors.py::test_compute_neighbors_1 PASSED [ 27%] tests/test_neighbors.py::test_compute_neighbors_2 PASSED [ 28%] tests/test_neighbors.py::test_compute_neighbors_3 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_after_close PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_shape PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_chunk_1 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_chunk_2 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_chunk_3 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_write_1 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_write_2 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_ragged_1 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_ragged_2 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_read_write_25 PASSED [ 28%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_write_3 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_n_atoms PASSED [ 29%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_do_overwrite PASSED [ 29%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_do_not_overwrite PASSED [ 29%] tests/test_netcdf.py::TestNetCDFNetCDF4::test_trajectory_save_load PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_after_close PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_shape PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_chunk_1 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_chunk_2 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_chunk_3 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_write_1 PASSED [ 29%] tests/test_netcdf.py::TestNetCDFScipy::test_read_write_2 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_ragged_1 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_ragged_2 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_read_write_25 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_write_3 PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_n_atoms PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_do_overwrite PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_do_not_overwrite PASSED [ 30%] tests/test_netcdf.py::TestNetCDFScipy::test_trajectory_save_load PASSED [ 30%] tests/test_netcdf.py::test_cpptraj SKIPPED (This test requires cpptr...) [ 30%] tests/test_nmr.py::test_spartaplus SKIPPED (SPARTA+ binary not found) [ 30%] tests/test_nmr.py::test_ppm SKIPPED (PPM binary not found) [ 30%] tests/test_nmr.py::test_shiftx2 SKIPPED (SHIFTX2 binary not found or...) [ 31%] tests/test_nmr.py::test_2_scalar_couplings PASSED [ 31%] tests/test_order.py::test_nematic_order PASSED [ 31%] tests/test_order.py::test_director PASSED [ 31%] tests/test_order.py::test_inertia PASSED [ 31%] tests/test_order.py::test_nematic_order_args PASSED [ 31%] tests/test_order.py::test_order_from_traj PASSED [ 31%] tests/test_order.py::test_directors_angle_from_traj PASSED [ 31%] tests/test_pdb.py::test_pdbread PASSED [ 31%] tests/test_pdb.py::test_pdbread_with_input_top PASSED [ 31%] tests/test_pdb.py::test_pdbwrite PASSED [ 31%] tests/test_pdb.py::test_load_multiframe PASSED [ 32%] tests/test_pdb.py::test_4ZUO PASSED [ 32%] tests/test_pdb.py::test_2EQQ_0 PASSED [ 32%] tests/test_pdb.py::test_1vii_solvated_with_ligand PASSED [ 32%] tests/test_pdb.py::test_write_large PASSED [ 32%] tests/test_pdb.py::test_write_large_2 PASSED [ 32%] tests/test_pdb.py::test_pdbstructure_0 PASSED [ 32%] tests/test_pdb.py::test_pdbstructure_1 PASSED [ 32%] tests/test_pdb.py::test_pdbstructure_2 PASSED [ 32%] tests/test_pdb.py::test_pdbstructure_3 PASSED [ 32%] tests/test_pdb.py::test_1ncw PASSED [ 32%] tests/test_pdb.py::test_segment_id PASSED [ 33%] tests/test_pdb.py::test_bfactors PASSED [ 33%] tests/test_pdb.py::test_hex PASSED [ 33%] tests/test_pdb.py::test_dummy_pdb_box_detection PASSED [ 33%] tests/test_pdb.py::test_multichain_load_cycle PASSED [ 33%] tests/test_pdb.py::test_multichain_load_cycle_noter PASSED [ 33%] tests/test_pdb.py::test_load_pdb_input_top PASSED [ 33%] tests/test_pdb.py::test_chimera_indexing PASSED [ 33%] tests/test_pdb.py::test_chimera_indexing_skip PASSED [ 33%] tests/test_pdb.py::test_vmd_indexing PASSED [ 33%] tests/test_pdb.py::test_overflow_indexing PASSED [ 33%] tests/test_pdb.py::test_blank_indexing PASSED [ 33%] tests/test_pdb.py::test_pdb_charge_read PASSED [ 34%] tests/test_pdb.py::test_pdb_charge_write PASSED [ 34%] tests/test_pdbx.py::test_convert PASSED [ 34%] tests/test_pdbx.py::test_load_pdbx_file PASSED [ 34%] tests/test_pdbx.py::test_write_and_read_pdbx PASSED [ 34%] tests/test_pdbx.py::test_write_and_read_pdbx_4py5 PASSED [ 34%] tests/test_pdbx.py::test_residue_selection_from_cif PASSED [ 34%] tests/test_pi_stacking.py::test_pi_stacking PASSED [ 34%] tests/test_pi_stacking.py::test_t_stacking_more_relaxed_radius PASSED [ 34%] tests/test_pi_stacking.py::test_t_stacking_default_settings PASSED [ 34%] tests/test_prmtop.py::test_load_prmtop PASSED [ 34%] tests/test_prmtop.py::test_load_chamber_prmtop PASSED [ 35%] tests/test_psf.py::test_load_psf PASSED [ 35%] tests/test_psf.py::test_multichain_psf PASSED [ 35%] tests/test_psf.py::test_load_mdcrd_with_psf PASSED [ 35%] tests/test_psf.py::test_against_vmd[1vii.pdb] SKIPPED (This test req...) [ 35%] tests/test_psf.py::test_against_vmd[2EQQ.pdb] SKIPPED (This test req...) [ 35%] tests/test_quaternion.py::test_quaternion_0 PASSED [ 35%] tests/test_quaternion.py::test_quaternion_1 PASSED [ 35%] tests/test_quaternion.py::test_quaternion_2 PASSED [ 35%] tests/test_rdf.py::test_rdf_norm PASSED [ 35%] tests/test_rdf.py::test_compare_rdf_to_gromacs SKIPPED (Binning does...) [ 35%] tests/test_rdf.py::test_rdf_t[True-True] PASSED [ 35%] tests/test_rdf.py::test_rdf_t[True-False] PASSED [ 36%] tests/test_rdf.py::test_rdf_t[False-True] PASSED [ 36%] tests/test_rdf.py::test_rdf_t[False-False] PASSED [ 36%] tests/test_rdf.py::test_rdf_t_norm[0] PASSED [ 36%] tests/test_rdf.py::test_rdf_t_norm[2] PASSED [ 36%] tests/test_rdf.py::test_rdf_t_norm[4] PASSED [ 36%] tests/test_rdf.py::test_compare_rdf_t_at_0[True-True] PASSED [ 36%] tests/test_rdf.py::test_compare_rdf_t_at_0[True-False] PASSED [ 36%] tests/test_rdf.py::test_compare_rdf_t_at_0[False-True] PASSED [ 36%] tests/test_rdf.py::test_compare_rdf_t_at_0[False-False] PASSED [ 36%] tests/test_rdf.py::test_amber_rdf_t[True-True] PASSED [ 36%] tests/test_rdf.py::test_amber_rdf_t[True-False] PASSED [ 37%] tests/test_rdf.py::test_amber_rdf_t[False-True] PASSED [ 37%] tests/test_rdf.py::test_amber_rdf_t[False-False] PASSED [ 37%] tests/test_rdf.py::test_compare_gromacs_rdf_t SKIPPED (Binning does ...) [ 37%] tests/test_rdf.py::test_compare_rdf_t_master PASSED [ 37%] tests/test_rdf.py::test_compare_n_concurrent_pairs PASSED [ 37%] tests/test_reporter.py::test_reporter SKIPPED (test_reporter.py need...) [ 37%] tests/test_reporter.py::test_reporter_subset SKIPPED (test_reporter....) [ 37%] tests/test_reporter.py::test_xtc_reporter_append SKIPPED (test_repor...) [ 37%] tests/test_restart.py::test_read_after_close PASSED [ 37%] tests/test_restart.py::test_shape PASSED [ 37%] tests/test_restart.py::test_shape_2 PASSED [ 38%] tests/test_restart.py::test_read_write_1 PASSED [ 38%] tests/test_restart.py::test_read_write_2 PASSED [ 38%] tests/test_restart.py::test_read_write_3 PASSED [ 38%] tests/test_restart.py::test_read_write_4 PASSED [ 38%] tests/test_rmsd.py::test_trajectory_rmsd[superpose-parallel] PASSED [ 38%] tests/test_rmsd.py::test_trajectory_rmsd[superpose-serial] PASSED [ 38%] tests/test_rmsd.py::test_trajectory_rmsd[qcp-parallel] PASSED [ 38%] tests/test_rmsd.py::test_trajectory_rmsd[qcp-serial] PASSED [ 38%] tests/test_rmsd.py::test_precentered_1 PASSED [ 38%] tests/test_rmsd.py::test_precentered_2 PASSED [ 38%] tests/test_rmsd.py::test_superpose_0 PASSED [ 38%] tests/test_rmsd.py::test_superpose_1 PASSED [ 39%] tests/test_rmsd.py::test_superpose_2 PASSED [ 39%] tests/test_rmsd.py::test_superpose_refinds PASSED [ 39%] tests/test_rmsd.py::test_rmsd_atom_indices PASSED [ 39%] tests/test_rmsd.py::test_rmsd_ref_ainds_superpose[superpose] PASSED [ 39%] tests/test_rmsd.py::test_rmsd_ref_ainds_superpose[qcp] PASSED [ 39%] tests/test_rmsd.py::test_average_structure PASSED [ 39%] tests/test_rmsd.py::test_trajectory_rmsf PASSED [ 39%] tests/test_rmsd.py::test_trajectory_rmsf_aligned PASSED [ 39%] tests/test_rmsd.py::test_rmsd_atom_indices_vs_ref_indices PASSED [ 39%] tests/test_rmsd_memmap.py::test_1 PASSED [ 39%] tests/test_rmsd_memmap.py::test_2 PASSED [ 40%] tests/test_sasa.py::test_sasa_0 PASSED [ 40%] tests/test_sasa.py::test_sasa_1 PASSED [ 40%] tests/test_sasa.py::test_sasa_2 PASSED [ 40%] tests/test_sasa.py::test_sasa_3 PASSED [ 40%] tests/test_sasa.py::test_sasa_4 PASSED [ 40%] tests/test_sasa.py::test_sasa_5 PASSED [ 40%] tests/test_sasa.py::test_sasa_6 PASSED [ 40%] tests/test_sasa.py::test_sasa_7 PASSED [ 40%] tests/test_selection.py::test_range PASSED [ 40%] tests/test_selection.py::test_unary_2 PASSED [ 40%] tests/test_selection.py::test_unary_3 PASSED [ 41%] tests/test_selection.py::test_binary_1 PASSED [ 41%] tests/test_selection.py::test_binary_2 PASSED [ 41%] tests/test_selection.py::test_simple PASSED [ 41%] tests/test_selection.py::test_alias PASSED [ 41%] tests/test_selection.py::test_unary_1 PASSED [ 41%] tests/test_selection.py::test_binary_selection_operator PASSED [ 41%] tests/test_selection.py::test_raises PASSED [ 41%] tests/test_selection.py::test_raises2 PASSED [ 41%] tests/test_selection.py::test_bool PASSED [ 41%] tests/test_selection.py::test_nested_bool PASSED [ 41%] tests/test_selection.py::test_values PASSED [ 41%] tests/test_selection.py::test_element PASSED [ 42%] tests/test_selection.py::test_not PASSED [ 42%] tests/test_selection.py::test_re PASSED [ 42%] tests/test_selection.py::test_within SKIPPED (failed to parse selection) [ 42%] tests/test_selection.py::test_quotes PASSED [ 42%] tests/test_selection.py::test_top PASSED [ 42%] tests/test_selection.py::test_top_2 PASSED [ 42%] tests/test_selection.py::test_backbone PASSED [ 42%] tests/test_selection.py::test_sidechain PASSED [ 42%] tests/test_selection.py::test_literal PASSED [ 42%] tests/test_selection.py::test_in PASSED [ 42%] tests/test_shape.py::test_gyration PASSED [ 43%] tests/test_shape.py::test_principal_moments PASSED [ 43%] tests/test_shape.py::test_asphericity PASSED [ 43%] tests/test_shape.py::test_shape_metrics PASSED [ 43%] tests/test_thermodynamic_properties.py::test_volume PASSED [ 43%] tests/test_thermodynamic_properties.py::test_density PASSED [ 43%] tests/test_thermodynamic_properties.py::test_dipole_moments PASSED [ 43%] tests/test_thermodynamic_properties.py::test_static_dielectric PASSED [ 43%] tests/test_thermodynamic_properties.py::test_kappa PASSED [ 43%] tests/test_thermodynamic_properties.py::test_alpha SKIPPED (Thermal ...) [ 43%] tests/test_topology.py::test_topology_openmm SKIPPED (needs OpenMM) [ 43%] tests/test_topology.py::test_topology_openmm_preserve_chain_id_when_specified SKIPPED [ 43%] tests/test_topology.py::test_topology_openmm_roundtrip_chain_id SKIPPED [ 44%] tests/test_topology.py::test_topology_openmm_preserve_chain_id_even_when_empty SKIPPED [ 44%] tests/test_topology.py::test_topology_openmm_boxes SKIPPED (needs Op...) [ 44%] tests/test_topology.py::test_topology_openmm_formal_charges SKIPPED [ 44%] tests/test_topology.py::test_topology_dataframe_formal_charges PASSED [ 44%] tests/test_topology.py::test_topology_pandas PASSED [ 44%] tests/test_topology.py::test_topology_pandas_TIP4PEW PASSED [ 44%] tests/test_topology.py::test_topology_pandas_2residues_same_resSeq PASSED [ 44%] tests/test_topology.py::test_topology_numbers PASSED [ 44%] tests/test_topology.py::test_topology_unique_elements_bpti PASSED [ 44%] tests/test_topology.py::test_chain PASSED [ 44%] tests/test_topology.py::test_residue PASSED [ 45%] tests/test_topology.py::test_segment_id PASSED [ 45%] tests/test_topology.py::test_nonconsective_resSeq PASSED [ 45%] tests/test_topology.py::test_pickle PASSED [ 45%] tests/test_topology.py::test_atoms_by_name PASSED [ 45%] tests/test_topology.py::test_select_atom_indices PASSED [ 45%] tests/test_topology.py::test_top_dataframe_openmm_roundtrip SKIPPED [ 45%] tests/test_topology.py::test_n_bonds PASSED [ 45%] tests/test_topology.py::test_load_unknown_topology PASSED [ 45%] tests/test_topology.py::test_unique_pairs PASSED [ 45%] tests/test_topology.py::test_select_pairs PASSED [ 45%] tests/test_topology.py::test_to_fasta PASSED [ 46%] tests/test_topology.py::test_subset PASSED [ 46%] tests/test_topology.py::test_subset_re_index_residues PASSED [ 46%] tests/test_topology.py::test_molecules PASSED [ 46%] tests/test_topology.py::test_copy_and_hash PASSED [ 46%] tests/test_topology.py::test_copy[traj.h5] PASSED [ 46%] tests/test_topology.py::test_copy[1ply_charge.pdb] PASSED [ 46%] tests/test_topology.py::test_topology_sliced_residue_indices PASSED [ 46%] tests/test_topology.py::test_topology_join PASSED [ 46%] tests/test_topology.py::test_topology_join_keep_resSeq PASSED [ 46%] tests/test_topology.py::test_topology_join_formal_charge PASSED [ 46%] tests/test_topology.py::test_delete_atom_by_index PASSED [ 46%] tests/test_trajectory.py::test_mismatch PASSED [ 47%] tests/test_trajectory.py::test_box PASSED [ 47%] tests/test_trajectory.py::test_load_pdb_box PASSED [ 47%] tests/test_trajectory.py::test_load_pdb_gz PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[nc] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[h5] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[xtc] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[trr] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[dcd] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[mdcrd] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[dtr] PASSED [ 47%] tests/test_trajectory.py::test_box_load_save[xyz] SKIPPED (xyz does ...) [ 48%] tests/test_trajectory.py::test_box_load_save[xyz.gz] SKIPPED (xyz.gz...) [ 48%] tests/test_trajectory.py::test_box_load_save[lammpstrj] PASSED [ 48%] tests/test_trajectory.py::test_box_load_save[lh5] SKIPPED (lh5 does ...) [ 48%] tests/test_trajectory.py::test_box_load_save[pdb] SKIPPED (pdb does ...) [ 48%] tests/test_trajectory.py::test_box_load_save[pdb.gz] SKIPPED (pdb.gz...) [ 48%] tests/test_trajectory.py::test_box_load_save[ncrst] PASSED [ 48%] tests/test_trajectory.py::test_box_load_save[rst7] PASSED [ 48%] tests/test_trajectory.py::test_box_load_save[gro] PASSED [ 48%] tests/test_trajectory.py::test_slice PASSED [ 48%] tests/test_trajectory.py::test_slice2 PASSED [ 48%] tests/test_trajectory.py::test_read_path[nc] PASSED [ 48%] tests/test_trajectory.py::test_read_path[h5] PASSED [ 49%] tests/test_trajectory.py::test_read_path[xtc] PASSED [ 49%] tests/test_trajectory.py::test_read_path[trr] PASSED [ 49%] tests/test_trajectory.py::test_read_path[dcd] PASSED [ 49%] tests/test_trajectory.py::test_read_path[mdcrd] PASSED [ 49%] tests/test_trajectory.py::test_read_path[dtr] PASSED [ 49%] tests/test_trajectory.py::test_read_path[xyz] PASSED [ 49%] tests/test_trajectory.py::test_read_path[xyz.gz] PASSED [ 49%] tests/test_trajectory.py::test_read_path[lammpstrj] PASSED [ 49%] tests/test_trajectory.py::test_read_path[lh5] PASSED [ 49%] tests/test_trajectory.py::test_read_path[pdb] PASSED [ 49%] tests/test_trajectory.py::test_read_path[pdb.gz] PASSED [ 50%] tests/test_trajectory.py::test_read_path[ncrst] XFAIL (These referen...) [ 50%] tests/test_trajectory.py::test_read_path[rst7] XFAIL (These referenc...) [ 50%] tests/test_trajectory.py::test_read_path[gro] PASSED [ 50%] tests/test_trajectory.py::test_write_path[nc] PASSED [ 50%] tests/test_trajectory.py::test_write_path[h5] PASSED [ 50%] tests/test_trajectory.py::test_write_path[xtc] PASSED [ 50%] tests/test_trajectory.py::test_write_path[trr] PASSED [ 50%] tests/test_trajectory.py::test_write_path[dcd] PASSED [ 50%] tests/test_trajectory.py::test_write_path[mdcrd] SKIPPED (mdcrd can ...) [ 50%] tests/test_trajectory.py::test_write_path[dtr] PASSED [ 50%] tests/test_trajectory.py::test_write_path[xyz] PASSED [ 51%] tests/test_trajectory.py::test_write_path[xyz.gz] PASSED [ 51%] tests/test_trajectory.py::test_write_path[lammpstrj] PASSED [ 51%] tests/test_trajectory.py::test_write_path[lh5] PASSED [ 51%] tests/test_trajectory.py::test_write_path[pdb] PASSED [ 51%] tests/test_trajectory.py::test_write_path[pdb.gz] PASSED [ 51%] tests/test_trajectory.py::test_write_path[ncrst] SKIPPED (ncrst can ...) [ 51%] tests/test_trajectory.py::test_write_path[rst7] SKIPPED (rst7 can on...) [ 51%] tests/test_trajectory.py::test_write_path[gro] PASSED [ 51%] tests/test_trajectory.py::test_read_write[nc-nc] PASSED [ 51%] tests/test_trajectory.py::test_read_write[nc-h5] PASSED [ 51%] tests/test_trajectory.py::test_read_write[nc-xtc] PASSED [ 51%] tests/test_trajectory.py::test_read_write[nc-trr] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-dcd] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-mdcrd] SKIPPED (mdcrd c...) [ 52%] tests/test_trajectory.py::test_read_write[nc-dtr] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-xyz] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-xyz.gz] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-lammpstrj] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-lh5] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-pdb] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-pdb.gz] PASSED [ 52%] tests/test_trajectory.py::test_read_write[nc-ncrst] SKIPPED (ncrst c...) [ 52%] tests/test_trajectory.py::test_read_write[nc-rst7] SKIPPED (rst7 can...) [ 53%] tests/test_trajectory.py::test_read_write[nc-gro] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-nc] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-h5] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-xtc] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-trr] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-dcd] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-mdcrd] SKIPPED (mdcrd c...) [ 53%] tests/test_trajectory.py::test_read_write[h5-dtr] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-xyz] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-xyz.gz] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-lammpstrj] PASSED [ 53%] tests/test_trajectory.py::test_read_write[h5-lh5] PASSED [ 54%] tests/test_trajectory.py::test_read_write[h5-pdb] PASSED [ 54%] tests/test_trajectory.py::test_read_write[h5-pdb.gz] PASSED [ 54%] tests/test_trajectory.py::test_read_write[h5-ncrst] SKIPPED (ncrst c...) [ 54%] tests/test_trajectory.py::test_read_write[h5-rst7] SKIPPED (rst7 can...) [ 54%] tests/test_trajectory.py::test_read_write[h5-gro] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-nc] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-h5] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-xtc] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-trr] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-dcd] PASSED [ 54%] tests/test_trajectory.py::test_read_write[xtc-mdcrd] SKIPPED (mdcrd ...) [ 55%] tests/test_trajectory.py::test_read_write[xtc-dtr] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-xyz] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-xyz.gz] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-lammpstrj] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-lh5] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-pdb] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-pdb.gz] PASSED [ 55%] tests/test_trajectory.py::test_read_write[xtc-ncrst] SKIPPED (ncrst ...) [ 55%] tests/test_trajectory.py::test_read_write[xtc-rst7] SKIPPED (rst7 ca...) [ 55%] tests/test_trajectory.py::test_read_write[xtc-gro] PASSED [ 55%] tests/test_trajectory.py::test_read_write[trr-nc] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-h5] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-xtc] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-trr] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-dcd] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-mdcrd] SKIPPED (mdcrd ...) [ 56%] tests/test_trajectory.py::test_read_write[trr-dtr] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-xyz] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-xyz.gz] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-lammpstrj] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-lh5] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-pdb] PASSED [ 56%] tests/test_trajectory.py::test_read_write[trr-pdb.gz] PASSED [ 57%] tests/test_trajectory.py::test_read_write[trr-ncrst] SKIPPED (ncrst ...) [ 57%] tests/test_trajectory.py::test_read_write[trr-rst7] SKIPPED (rst7 ca...) [ 57%] tests/test_trajectory.py::test_read_write[trr-gro] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-nc] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-h5] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-xtc] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-trr] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-dcd] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-mdcrd] SKIPPED (mdcrd ...) [ 57%] tests/test_trajectory.py::test_read_write[dcd-dtr] PASSED [ 57%] tests/test_trajectory.py::test_read_write[dcd-xyz] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-xyz.gz] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-lammpstrj] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-lh5] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-pdb] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-pdb.gz] PASSED [ 58%] tests/test_trajectory.py::test_read_write[dcd-ncrst] SKIPPED (ncrst ...) [ 58%] tests/test_trajectory.py::test_read_write[dcd-rst7] SKIPPED (rst7 ca...) [ 58%] tests/test_trajectory.py::test_read_write[dcd-gro] PASSED [ 58%] tests/test_trajectory.py::test_read_write[mdcrd-nc] PASSED [ 58%] tests/test_trajectory.py::test_read_write[mdcrd-h5] PASSED [ 58%] tests/test_trajectory.py::test_read_write[mdcrd-xtc] PASSED [ 58%] tests/test_trajectory.py::test_read_write[mdcrd-trr] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-dcd] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-mdcrd] SKIPPED (mdcr...) [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-dtr] SKIPPED (dtr ne...) [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-xyz] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-xyz.gz] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-lammpstrj] SKIPPED (...) [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-lh5] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-pdb] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-pdb.gz] PASSED [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-ncrst] SKIPPED (ncrs...) [ 59%] tests/test_trajectory.py::test_read_write[mdcrd-rst7] SKIPPED (rst7 ...) [ 60%] tests/test_trajectory.py::test_read_write[mdcrd-gro] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-nc] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-h5] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-xtc] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-trr] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-dcd] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-mdcrd] SKIPPED (mdcrd ...) [ 60%] tests/test_trajectory.py::test_read_write[dtr-dtr] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-xyz] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-xyz.gz] PASSED [ 60%] tests/test_trajectory.py::test_read_write[dtr-lammpstrj] PASSED [ 61%] tests/test_trajectory.py::test_read_write[dtr-lh5] PASSED [ 61%] tests/test_trajectory.py::test_read_write[dtr-pdb] PASSED [ 61%] tests/test_trajectory.py::test_read_write[dtr-pdb.gz] PASSED [ 61%] tests/test_trajectory.py::test_read_write[dtr-ncrst] SKIPPED (ncrst ...) [ 61%] tests/test_trajectory.py::test_read_write[dtr-rst7] SKIPPED (rst7 ca...) [ 61%] tests/test_trajectory.py::test_read_write[dtr-gro] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-nc] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-h5] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-xtc] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-trr] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-dcd] PASSED [ 61%] tests/test_trajectory.py::test_read_write[xyz-mdcrd] SKIPPED (mdcrd ...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-dtr] SKIPPED (dtr need...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-xyz] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-xyz.gz] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-lammpstrj] SKIPPED (la...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-lh5] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-pdb] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-pdb.gz] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz-ncrst] SKIPPED (ncrst ...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-rst7] SKIPPED (rst7 ca...) [ 62%] tests/test_trajectory.py::test_read_write[xyz-gro] PASSED [ 62%] tests/test_trajectory.py::test_read_write[xyz.gz-nc] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-h5] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-xtc] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-trr] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-dcd] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-mdcrd] SKIPPED (mdc...) [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-dtr] SKIPPED (dtr n...) [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-xyz] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-xyz.gz] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-lammpstrj] SKIPPED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-lh5] PASSED [ 63%] tests/test_trajectory.py::test_read_write[xyz.gz-pdb] PASSED [ 64%] tests/test_trajectory.py::test_read_write[xyz.gz-pdb.gz] PASSED [ 64%] tests/test_trajectory.py::test_read_write[xyz.gz-ncrst] SKIPPED (ncr...) [ 64%] tests/test_trajectory.py::test_read_write[xyz.gz-rst7] SKIPPED (rst7...) [ 64%] tests/test_trajectory.py::test_read_write[xyz.gz-gro] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-nc] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-h5] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-xtc] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-trr] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-dcd] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-mdcrd] SKIPPED (...) [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-dtr] PASSED [ 64%] tests/test_trajectory.py::test_read_write[lammpstrj-xyz] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-xyz.gz] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-lammpstrj] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-lh5] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-pdb] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-pdb.gz] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-ncrst] SKIPPED (...) [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-rst7] SKIPPED (r...) [ 65%] tests/test_trajectory.py::test_read_write[lammpstrj-gro] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lh5-nc] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lh5-h5] PASSED [ 65%] tests/test_trajectory.py::test_read_write[lh5-xtc] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-trr] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-dcd] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-mdcrd] SKIPPED (mdcrd ...) [ 66%] tests/test_trajectory.py::test_read_write[lh5-dtr] SKIPPED (dtr need...) [ 66%] tests/test_trajectory.py::test_read_write[lh5-xyz] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-xyz.gz] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-lammpstrj] SKIPPED (la...) [ 66%] tests/test_trajectory.py::test_read_write[lh5-lh5] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-pdb] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-pdb.gz] PASSED [ 66%] tests/test_trajectory.py::test_read_write[lh5-ncrst] SKIPPED (ncrst ...) [ 66%] tests/test_trajectory.py::test_read_write[lh5-rst7] SKIPPED (rst7 ca...) [ 67%] tests/test_trajectory.py::test_read_write[lh5-gro] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-nc] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-h5] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-xtc] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-trr] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-dcd] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-mdcrd] SKIPPED (mdcrd ...) [ 67%] tests/test_trajectory.py::test_read_write[pdb-dtr] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-xyz] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-xyz.gz] PASSED [ 67%] tests/test_trajectory.py::test_read_write[pdb-lammpstrj] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb-lh5] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb-pdb] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb-pdb.gz] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb-ncrst] SKIPPED (ncrst ...) [ 68%] tests/test_trajectory.py::test_read_write[pdb-rst7] SKIPPED (rst7 ca...) [ 68%] tests/test_trajectory.py::test_read_write[pdb-gro] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-nc] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-h5] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-xtc] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-trr] PASSED [ 68%] tests/test_trajectory.py::test_read_write[pdb.gz-dcd] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-mdcrd] SKIPPED (mdc...) [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-dtr] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-xyz] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-xyz.gz] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-lammpstrj] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-lh5] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-pdb] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-pdb.gz] PASSED [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-ncrst] SKIPPED (ncr...) [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-rst7] SKIPPED (rst7...) [ 69%] tests/test_trajectory.py::test_read_write[pdb.gz-gro] PASSED [ 69%] tests/test_trajectory.py::test_read_write[ncrst-nc] XFAIL (These ref...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-h5] XFAIL (These ref...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-xtc] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-trr] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-dcd] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-mdcrd] XFAIL (These ...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-dtr] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-xyz] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-xyz.gz] XFAIL (These...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-lammpstrj] XFAIL (Th...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-lh5] XFAIL (These re...) [ 70%] tests/test_trajectory.py::test_read_write[ncrst-pdb] XFAIL (These re...) [ 71%] tests/test_trajectory.py::test_read_write[ncrst-pdb.gz] XFAIL (These...) [ 71%] tests/test_trajectory.py::test_read_write[ncrst-ncrst] XFAIL (These ...) [ 71%] tests/test_trajectory.py::test_read_write[ncrst-rst7] XFAIL (These r...) [ 71%] tests/test_trajectory.py::test_read_write[ncrst-gro] XFAIL (These re...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-nc] XFAIL (These refe...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-h5] XFAIL (These refe...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-xtc] XFAIL (These ref...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-trr] XFAIL (These ref...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-dcd] XFAIL (These ref...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-mdcrd] XFAIL (These r...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-dtr] XFAIL (These ref...) [ 71%] tests/test_trajectory.py::test_read_write[rst7-xyz] XFAIL (These ref...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-xyz.gz] XFAIL (These ...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-lammpstrj] XFAIL (The...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-lh5] XFAIL (These ref...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-pdb] XFAIL (These ref...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-pdb.gz] XFAIL (These ...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-ncrst] XFAIL (These r...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-rst7] XFAIL (These re...) [ 72%] tests/test_trajectory.py::test_read_write[rst7-gro] XFAIL (These ref...) [ 72%] tests/test_trajectory.py::test_read_write[gro-nc] PASSED [ 72%] tests/test_trajectory.py::test_read_write[gro-h5] PASSED [ 72%] tests/test_trajectory.py::test_read_write[gro-xtc] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-trr] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-dcd] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-mdcrd] SKIPPED (mdcrd ...) [ 73%] tests/test_trajectory.py::test_read_write[gro-dtr] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-xyz] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-xyz.gz] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-lammpstrj] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-lh5] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-pdb] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-pdb.gz] PASSED [ 73%] tests/test_trajectory.py::test_read_write[gro-ncrst] SKIPPED (ncrst ...) [ 74%] tests/test_trajectory.py::test_read_write[gro-rst7] SKIPPED (rst7 ca...) [ 74%] tests/test_trajectory.py::test_read_write[gro-gro] PASSED [ 74%] tests/test_trajectory.py::test_load[nc] PASSED [ 74%] tests/test_trajectory.py::test_load[h5] PASSED [ 74%] tests/test_trajectory.py::test_load[xtc] PASSED [ 74%] tests/test_trajectory.py::test_load[trr] PASSED [ 74%] tests/test_trajectory.py::test_load[dcd] PASSED [ 74%] tests/test_trajectory.py::test_load[mdcrd] PASSED [ 74%] tests/test_trajectory.py::test_load[dtr] PASSED [ 74%] tests/test_trajectory.py::test_load[xyz] PASSED [ 74%] tests/test_trajectory.py::test_load[xyz.gz] PASSED [ 74%] tests/test_trajectory.py::test_load[lammpstrj] PASSED [ 75%] tests/test_trajectory.py::test_load[lh5] PASSED [ 75%] tests/test_trajectory.py::test_load[pdb] PASSED [ 75%] tests/test_trajectory.py::test_load[pdb.gz] PASSED [ 75%] tests/test_trajectory.py::test_load[ncrst] XFAIL (These reference fi...) [ 75%] tests/test_trajectory.py::test_load[rst7] XFAIL (These reference fil...) [ 75%] tests/test_trajectory.py::test_load[gro] PASSED [ 75%] tests/test_trajectory.py::test_hdf5 PASSED [ 75%] tests/test_trajectory.py::test_center PASSED [ 75%] tests/test_trajectory.py::test_center_aind PASSED [ 75%] tests/test_trajectory.py::test_float_atom_indices_exception[nc] PASSED [ 75%] tests/test_trajectory.py::test_float_atom_indices_exception[h5] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[xtc] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[trr] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[dcd] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[mdcrd] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[dtr] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[xyz] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[xyz.gz] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[lammpstrj] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[lh5] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[pdb] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[pdb.gz] PASSED [ 76%] tests/test_trajectory.py::test_float_atom_indices_exception[ncrst] XFAIL [ 77%] tests/test_trajectory.py::test_float_atom_indices_exception[rst7] XFAIL [ 77%] tests/test_trajectory.py::test_float_atom_indices_exception[gro] PASSED [ 77%] tests/test_trajectory.py::test_restrict_atoms PASSED [ 77%] tests/test_trajectory.py::test_restrict_atoms_not_inplace PASSED [ 77%] tests/test_trajectory.py::test_array_vs_matrix PASSED [ 77%] tests/test_trajectory.py::test_pdb_unitcell_loadsave PASSED [ 77%] tests/test_trajectory.py::test_load_combination[nc] PASSED [ 77%] tests/test_trajectory.py::test_load_combination[h5] PASSED [ 77%] tests/test_trajectory.py::test_load_combination[xtc] PASSED [ 77%] tests/test_trajectory.py::test_load_combination[trr] PASSED [ 77%] tests/test_trajectory.py::test_load_combination[dcd] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[mdcrd] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[dtr] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[xyz] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[xyz.gz] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[lammpstrj] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[lh5] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[pdb] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[pdb.gz] PASSED [ 78%] tests/test_trajectory.py::test_load_combination[ncrst] XFAIL (These ...) [ 78%] tests/test_trajectory.py::test_load_combination[rst7] XFAIL (These r...) [ 78%] tests/test_trajectory.py::test_load_combination[gro] PASSED [ 79%] tests/test_trajectory.py::test_no_topology PASSED [ 79%] tests/test_trajectory.py::test_join PASSED [ 79%] tests/test_trajectory.py::test_md_join PASSED [ 79%] tests/test_trajectory.py::test_stack_1 PASSED [ 79%] tests/test_trajectory.py::test_stack_2 PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[nc] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[h5] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[xtc] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[trr] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[dcd] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[mdcrd] PASSED [ 79%] tests/test_trajectory.py::test_seek_read_mode[dtr] PASSED [ 80%] tests/test_trajectory.py::test_seek_read_mode[xyz] PASSED [ 80%] tests/test_trajectory.py::test_seek_read_mode[xyz.gz] XFAIL (This is...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[lammpstrj] PASSED [ 80%] tests/test_trajectory.py::test_seek_read_mode[lh5] PASSED [ 80%] tests/test_trajectory.py::test_seek_read_mode[pdb] XFAIL (PDB Files ...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[pdb.gz] XFAIL (PDB Fil...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[ncrst] XFAIL (These re...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[rst7] XFAIL (These ref...) [ 80%] tests/test_trajectory.py::test_seek_read_mode[gro] XFAIL (This is br...) [ 80%] tests/test_trajectory.py::test_load_frame[nc] PASSED [ 80%] tests/test_trajectory.py::test_load_frame[h5] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[xtc] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[trr] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[dcd] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[mdcrd] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[dtr] XFAIL (DTR doesn't lo...) [ 81%] tests/test_trajectory.py::test_load_frame[xyz] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[xyz.gz] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[lammpstrj] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[lh5] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[pdb] PASSED [ 81%] tests/test_trajectory.py::test_load_frame[pdb.gz] PASSED [ 82%] tests/test_trajectory.py::test_load_frame[ncrst] XFAIL (These refere...) [ 82%] tests/test_trajectory.py::test_load_frame[rst7] XFAIL (These referen...) [ 82%] tests/test_trajectory.py::test_load_frame[gro] XFAIL (Gro doesn't im...) [ 82%] tests/test_trajectory.py::test_load_frame_2eqq PASSED [ 82%] tests/test_trajectory.py::test_iterload[nc] PASSED [ 82%] tests/test_trajectory.py::test_iterload[h5] PASSED [ 82%] tests/test_trajectory.py::test_iterload[xtc] PASSED [ 82%] tests/test_trajectory.py::test_iterload[trr] PASSED [ 82%] tests/test_trajectory.py::test_iterload[dcd] PASSED [ 82%] tests/test_trajectory.py::test_iterload[mdcrd] PASSED [ 82%] tests/test_trajectory.py::test_iterload[dtr] XFAIL (This is broken w...) [ 82%] tests/test_trajectory.py::test_iterload[xyz] PASSED [ 83%] tests/test_trajectory.py::test_iterload[xyz.gz] PASSED [ 83%] tests/test_trajectory.py::test_iterload[lammpstrj] PASSED [ 83%] tests/test_trajectory.py::test_iterload[lh5] PASSED [ 83%] tests/test_trajectory.py::test_iterload[pdb] PASSED [ 83%] tests/test_trajectory.py::test_iterload[pdb.gz] PASSED [ 83%] tests/test_trajectory.py::test_iterload[ncrst] SKIPPED (Only 1 frame...) [ 83%] tests/test_trajectory.py::test_iterload[rst7] SKIPPED (Only 1 frame ...) [ 83%] tests/test_trajectory.py::test_iterload[gro] PASSED [ 83%] tests/test_trajectory.py::test_iterload_skip[nc] PASSED [ 83%] tests/test_trajectory.py::test_iterload_skip[h5] PASSED [ 83%] tests/test_trajectory.py::test_iterload_skip[xtc] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[trr] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[dcd] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[mdcrd] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[dtr] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[xyz] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[xyz.gz] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[lammpstrj] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[lh5] PASSED [ 84%] tests/test_trajectory.py::test_iterload_skip[pdb] XFAIL (PDB Iterloa...) [ 84%] tests/test_trajectory.py::test_iterload_skip[pdb.gz] XFAIL (PDB Iter...) [ 84%] tests/test_trajectory.py::test_iterload_skip[ncrst] XFAIL (These ref...) [ 84%] tests/test_trajectory.py::test_iterload_skip[rst7] XFAIL (These refe...) [ 85%] tests/test_trajectory.py::test_iterload_skip[gro] XFAIL (Not impleme...) [ 85%] tests/test_trajectory.py::test_iterload_chunk_dcd PASSED [ 85%] tests/test_trajectory.py::test_save_load[nc] PASSED [ 85%] tests/test_trajectory.py::test_save_load[h5] PASSED [ 85%] tests/test_trajectory.py::test_save_load[xtc] PASSED [ 85%] tests/test_trajectory.py::test_save_load[trr] PASSED [ 85%] tests/test_trajectory.py::test_save_load[dcd] PASSED [ 85%] tests/test_trajectory.py::test_save_load[mdcrd] PASSED [ 85%] tests/test_trajectory.py::test_save_load[dtr] PASSED [ 85%] tests/test_trajectory.py::test_save_load[xyz] PASSED [ 85%] tests/test_trajectory.py::test_save_load[xyz.gz] PASSED [ 86%] tests/test_trajectory.py::test_save_load[lammpstrj] PASSED [ 86%] tests/test_trajectory.py::test_save_load[lh5] PASSED [ 86%] tests/test_trajectory.py::test_save_load[pdb] PASSED [ 86%] tests/test_trajectory.py::test_save_load[pdb.gz] PASSED [ 86%] tests/test_trajectory.py::test_save_load[ncrst] PASSED [ 86%] tests/test_trajectory.py::test_save_load[rst7] PASSED [ 86%] tests/test_trajectory.py::test_save_load[gro] PASSED [ 86%] tests/test_trajectory.py::test_force_overwrite[nc] PASSED [ 86%] tests/test_trajectory.py::test_force_overwrite[h5] PASSED [ 86%] tests/test_trajectory.py::test_force_overwrite[xtc] PASSED [ 86%] tests/test_trajectory.py::test_force_overwrite[trr] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[dcd] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[mdcrd] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[dtr] XFAIL (This is b...) [ 87%] tests/test_trajectory.py::test_force_overwrite[xyz] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[xyz.gz] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[lammpstrj] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[lh5] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[pdb] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[pdb.gz] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[ncrst] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[rst7] PASSED [ 87%] tests/test_trajectory.py::test_force_overwrite[gro] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[nc] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[h5] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[xtc] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[trr] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[dcd] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[mdcrd] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[dtr] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[xyz] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[xyz.gz] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[lammpstrj] PASSED [ 88%] tests/test_trajectory.py::test_force_noverwrite[lh5] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[pdb] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[pdb.gz] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[ncrst] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[rst7] PASSED [ 89%] tests/test_trajectory.py::test_force_noverwrite[gro] PASSED [ 89%] tests/test_trajectory.py::test_open_and_load PASSED [ 89%] tests/test_trajectory.py::test_length PASSED [ 89%] tests/test_trajectory.py::test_unitcell[nc] PASSED [ 89%] tests/test_trajectory.py::test_unitcell[h5] PASSED [ 89%] tests/test_trajectory.py::test_unitcell[xtc] PASSED [ 89%] tests/test_trajectory.py::test_unitcell[trr] PASSED [ 89%] tests/test_trajectory.py::test_unitcell[dcd] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[mdcrd] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[dtr] XFAIL (dtr seems to nee...) [ 90%] tests/test_trajectory.py::test_unitcell[xyz] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[xyz.gz] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[lammpstrj] XFAIL (lammpstrj ...) [ 90%] tests/test_trajectory.py::test_unitcell[lh5] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[pdb] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[pdb.gz] PASSED [ 90%] tests/test_trajectory.py::test_unitcell[ncrst] XFAIL (ncrst seems to...) [ 90%] tests/test_trajectory.py::test_unitcell[rst7] XFAIL (rst7 seems to n...) [ 90%] tests/test_trajectory.py::test_unitcell[gro] PASSED [ 91%] tests/test_trajectory.py::test_chunk0_iterload PASSED [ 91%] tests/test_trajectory.py::test_hashing PASSED [ 91%] tests/test_trajectory.py::test_smooth PASSED [ 91%] tests/test_trajectory.py::test_make_whole PASSED [ 91%] tests/test_trajectory.py::test_load_pdb_no_standard_names PASSED [ 91%] tests/test_trajectory.py::test_load_with_atom_indices PASSED [ 91%] tests/test_trajectory.py::test_atom_slicing PASSED [ 91%] tests/test_trajectory.py::test_load_with_frame PASSED [ 91%] tests/test_trajectory.py::test_add_remove_atoms PASSED [ 91%] tests/test_trr.py::test_1 PASSED [ 91%] tests/test_trr.py::test_read_stride PASSED [ 92%] tests/test_trr.py::test_read_stride_n_frames PASSED [ 92%] tests/test_trr.py::test_read_stride_offsets PASSED [ 92%] tests/test_trr.py::test_read_stride_n_frames_offsets PASSED [ 92%] tests/test_trr.py::test_read_stride_switching PASSED [ 92%] tests/test_trr.py::test_write_read PASSED [ 92%] tests/test_trr.py::test_read_atomindices_1 PASSED [ 92%] tests/test_trr.py::test_read_atomindices_2 PASSED [ 92%] tests/test_trr.py::test_deficient_shape PASSED [ 92%] tests/test_trr.py::test_ragged_1 PASSED [ 92%] tests/test_trr.py::test_ragged_2 PASSED [ 92%] tests/test_trr.py::test_malformed PASSED [ 92%] tests/test_trr.py::test_tell PASSED [ 93%] tests/test_trr.py::test_seek PASSED [ 93%] tests/test_trr.py::test_get_velocities PASSED [ 93%] tests/test_trr.py::test_get_forces PASSED [ 93%] tests/test_trr.py::test_get_velocities_and_forces PASSED [ 93%] tests/test_trr.py::test_get_velocities_forces_atom_indices_1 PASSED [ 93%] tests/test_trr.py::test_get_velocities_forces_atom_indices_2 PASSED [ 93%] tests/test_trr.py::test_read_velocities_do_not_exist PASSED [ 93%] tests/test_trr.py::test_read_forces_do_not_exist PASSED [ 93%] tests/test_unitcell.py::Test_Unitcell::test_valid[orthogonal] PASSED [ 93%] tests/test_unitcell.py::Test_Unitcell::test_valid[triclinic] PASSED [ 93%] tests/test_unitcell.py::Test_Unitcell::test_invalid_over360[over360] PASSED [ 94%] tests/test_unitcell.py::Test_Unitcell::test_invalid_over360[close] PASSED [ 94%] tests/test_unitcell.py::Test_Unitcell::test_valid_array PASSED [ 94%] tests/test_unitcell.py::Test_Unitcell::test_invalid_over360_array PASSED [ 94%] tests/test_unitcell.py::Test_Unitcell::test_invalid_angles_close_array PASSED [ 94%] tests/test_utils.py::test_unitcell_0 PASSED [ 94%] tests/test_utils.py::test_unitcell_1 PASSED [ 94%] tests/test_utils.py::test_ensure_type_1 PASSED [ 94%] tests/test_utils.py::test_ensure_type_2 PASSED [ 94%] tests/test_utils.py::test_ensure_type_25 PASSED [ 94%] tests/test_utils.py::test_ensure_type_3 PASSED [ 94%] tests/test_utils.py::test_ensure_type_4 PASSED [ 94%] tests/test_utils.py::test_ensure_type_5 PASSED [ 95%] tests/test_utils.py::test_ensure_type_6 PASSED [ 95%] tests/test_utils.py::test_ensure_type_7 PASSED [ 95%] tests/test_utils.py::test_ensure_type_8 PASSED [ 95%] tests/test_utils.py::test_ensure_type_9 PASSED [ 95%] tests/test_utils.py::test_ensure_type_10 PASSED [ 95%] tests/test_utils.py::test_ensure_type_11 PASSED [ 95%] tests/test_utils.py::test_ensure_type_12 PASSED [ 95%] tests/test_utils.py::test_ensure_type_13 PASSED [ 95%] tests/test_utils.py::test_ensure_type_14 PASSED [ 95%] tests/test_utils.py::test_ensure_type_15 PASSED [ 95%] tests/test_utils.py::test_delay_import_fail_1 PASSED [ 96%] tests/test_utils.py::test_delay_import PASSED [ 96%] tests/test_utils.py::test_unit_0 PASSED [ 96%] tests/test_utils.py::test_unit_1 PASSED [ 96%] tests/test_utils.py::test_unit_2 PASSED [ 96%] tests/test_utils.py::test_unit_3 PASSED [ 96%] tests/test_xml.py::test_xml PASSED [ 96%] tests/test_xtc.py::test_read_chunk1 PASSED [ 96%] tests/test_xtc.py::test_read_stride PASSED [ 96%] tests/test_xtc.py::test_read_stride_n_frames PASSED [ 96%] tests/test_xtc.py::test_read_stride_offsets PASSED [ 96%] tests/test_xtc.py::test_read_stride_n_frames_offsets PASSED [ 97%] tests/test_xtc.py::test_read_stride_switching_offsets PASSED [ 97%] tests/test_xtc.py::test_read_atomindices_1 PASSED [ 97%] tests/test_xtc.py::test_read_atomindices_w_stride PASSED [ 97%] tests/test_xtc.py::test_read_atomindices_2 PASSED [ 97%] tests/test_xtc.py::test_read_chunk2 PASSED [ 97%] tests/test_xtc.py::test_read_chunk3 PASSED [ 97%] tests/test_xtc.py::test_write_0 PASSED [ 97%] tests/test_xtc.py::test_write_1 PASSED [ 97%] tests/test_xtc.py::test_write_2 PASSED [ 97%] tests/test_xtc.py::test_read_error_0 PASSED [ 97%] tests/test_xtc.py::test_write_error_0 PASSED [ 97%] tests/test_xtc.py::test_read_error_1 PASSED [ 98%] tests/test_xtc.py::test_read_error_2 PASSED [ 98%] tests/test_xtc.py::test_xtc_write_wierd_0 PASSED [ 98%] tests/test_xtc.py::test_tell PASSED [ 98%] tests/test_xtc.py::test_seek PASSED [ 98%] tests/test_xtc.py::test_seek_natoms9 PASSED [ 98%] tests/test_xtc.py::test_seek_out_of_bounds PASSED [ 98%] tests/test_xtc.py::test_ragged_1 PASSED [ 98%] tests/test_xtc.py::test_ragged_2 PASSED [ 98%] tests/test_xtc.py::test_short_traj PASSED [ 98%] tests/test_xtc.py::test_flush PASSED [ 98%] tests/test_xyz.py::test_read_0 PASSED [ 99%] tests/test_xyz.py::test_read_1 PASSED [ 99%] tests/test_xyz.py::test_read_gz PASSED [ 99%] tests/test_xyz.py::test_read_write PASSED [ 99%] tests/test_xyz.py::test_mdwrite PASSED [ 99%] tests/test_xyz.py::test_multiread PASSED [ 99%] tests/test_xyz.py::test_seek PASSED [ 99%] tests/test_xyz.py::test_len PASSED [ 99%] tests/test_zipped.py::test_read_gz PASSED [ 99%] tests/test_zipped.py::test_write_gz PASSED [ 99%] tests/test_zipped.py::test_read_bz2 PASSED [ 99%] tests/test_zipped.py::test_write_bz2 PASSED [100%] =============================== warnings summary =============================== tests/test_distance.py::Test_Distance::test_6 :488: RuntimeWarning: numpy.ndarray size changed, may indicate binary incompatibility. Expected 8 from C header, got 48 from PyObject -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html =========================== short test summary info ============================ SKIPPED [1] tests/test_dihedral.py:56: pymol executable not found SKIPPED [1] tests/test_dihedral.py:181: pymol executable not found SKIPPED [15] tests/test_docstrings.py:38: Skip checking certain modules' docstrings SKIPPED [1] tests/test_geometry.py:300: Not doing performance testing SKIPPED [1] tests/test_geometry.py:322: Not doing performance testing SKIPPED [1] tests/test_hdf5.py:105: requires openmm.units SKIPPED [1] tests/test_hdf5.py:156: requires openmm.units SKIPPED [1] tests/test_hdf5.py:223: requires openmm.units SKIPPED [1] tests/test_mol2.py:59: Requires obabel SKIPPED [1] tests/test_netcdf.py:274: This test requires cpptraj from AmberTools to be installed (http://ambermd.org) SKIPPED [1] tests/test_nmr.py:11: SPARTA+ binary not found SKIPPED [1] tests/test_nmr.py:26: PPM binary not found SKIPPED [1] tests/test_nmr.py:42: SHIFTX2 binary not found or running on travis. SKIPPED [2] tests/test_psf.py:93: This test requires the VMD executable: http://www.ks.uiuc.edu/Research/vmd/ SKIPPED [1] tests/test_rdf.py:64: Binning does not match up with gromacs currently. SKIPPED [1] tests/test_rdf.py:200: Binning does not match up with gromacs currently. SKIPPED [1] tests/test_reporter.py:58: test_reporter.py needs OpenMM. SKIPPED [1] tests/test_reporter.py:145: test_reporter.py needs OpenMM. SKIPPED [1] tests/test_reporter.py:245: test_reporter.py needs OpenMM. SKIPPED [1] tests/test_selection.py:267: failed to parse selection SKIPPED [1] tests/test_thermodynamic_properties.py:161: Thermal expansion test doesn't work. SKIPPED [1] tests/test_topology.py:49: needs OpenMM SKIPPED [1] tests/test_topology.py:66: needs OpenMM SKIPPED [1] tests/test_topology.py:76: needs OpenMM SKIPPED [1] tests/test_topology.py:85: needs OpenMM SKIPPED [1] tests/test_topology.py:95: needs OpenMM SKIPPED [1] tests/test_topology.py:102: requires openmm >= 8.2 SKIPPED [1] tests/test_topology.py:284: needs OpenMM SKIPPED [1] tests/test_trajectory.py:129: xyz does not store box information SKIPPED [1] tests/test_trajectory.py:129: xyz.gz does not store box information SKIPPED [1] tests/test_trajectory.py:129: lh5 does not store box information SKIPPED [1] tests/test_trajectory.py:129: pdb does not store box information SKIPPED [1] tests/test_trajectory.py:129: pdb.gz does not store box information SKIPPED [1] tests/test_trajectory.py:225: mdcrd can only store rectilinear boxes SKIPPED [1] tests/test_trajectory.py:223: ncrst can only store 1 frame per file SKIPPED [1] tests/test_trajectory.py:223: rst7 can only store 1 frame per file SKIPPED [14] tests/test_trajectory.py:247: mdcrd can only store rectilinear boxes SKIPPED [14] tests/test_trajectory.py:245: ncrst can only store 1 frame per file SKIPPED [14] tests/test_trajectory.py:245: rst7 can only store 1 frame per file SKIPPED [4] tests/test_trajectory.py:255: dtr needs to write unitcells SKIPPED [4] tests/test_trajectory.py:255: lammpstrj needs to write unitcells SKIPPED [2] tests/test_trajectory.py:641: Only 1 frame per file format XFAIL tests/test_trajectory.py::test_read_path[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_path[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-nc] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-h5] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-xtc] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-trr] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-dcd] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-mdcrd] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-dtr] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-xyz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-xyz.gz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-lammpstrj] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-lh5] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-pdb] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-pdb.gz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[ncrst-gro] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-nc] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-h5] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-xtc] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-trr] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-dcd] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-mdcrd] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-dtr] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-xyz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-xyz.gz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-lammpstrj] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-lh5] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-pdb] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-pdb.gz] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_read_write[rst7-gro] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_float_atom_indices_exception[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_float_atom_indices_exception[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load_combination[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load_combination[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_seek_read_mode[xyz.gz] - This is broken XFAIL tests/test_trajectory.py::test_seek_read_mode[pdb] - PDB Files don't support seeking XFAIL tests/test_trajectory.py::test_seek_read_mode[pdb.gz] - PDB Files don't support seeking XFAIL tests/test_trajectory.py::test_seek_read_mode[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_seek_read_mode[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_seek_read_mode[gro] - This is broken XFAIL tests/test_trajectory.py::test_load_frame[dtr] - DTR doesn't load a single frame properly XFAIL tests/test_trajectory.py::test_load_frame[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load_frame[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_load_frame[gro] - Gro doesn't implement seek XFAIL tests/test_trajectory.py::test_iterload[dtr] - This is broken with dtr XFAIL tests/test_trajectory.py::test_iterload_skip[pdb] - PDB Iterloads an extra frame!! XFAIL tests/test_trajectory.py::test_iterload_skip[pdb.gz] - PDB Iterloads an extra frame!! XFAIL tests/test_trajectory.py::test_iterload_skip[ncrst] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_iterload_skip[rst7] - These reference files don't exist yet XFAIL tests/test_trajectory.py::test_iterload_skip[gro] - Not implemented for some reason XFAIL tests/test_trajectory.py::test_force_overwrite[dtr] - This is broken with dtr XFAIL tests/test_trajectory.py::test_unitcell[dtr] - dtr seems to need unit vectors XFAIL tests/test_trajectory.py::test_unitcell[lammpstrj] - lammpstrj seems to need unit vectors XFAIL tests/test_trajectory.py::test_unitcell[ncrst] - ncrst seems to need unit vectors XFAIL tests/test_trajectory.py::test_unitcell[rst7] - rst7 seems to need unit vectors = 975 passed, 103 skipped, 22 deselected, 61 xfailed, 1 warning in 232.66s (0:03:52) = lugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) dcdplugin) detected standard 32-bit DCD file of native endianness dcdplugin) CHARMM format DCD file (also NAMD 2.1 and later) rm -fr -- /tmp/dh-xdg-rundir-wJ6r_6qn create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild rm -f -- debian/python3-mdtraj.substvars rm -fr -- debian/.debhelper/generated/python3-mdtraj/ debian/python3-mdtraj/ debian/tmp/ dh_auto_install -a -O--buildsystem=pybuild install -m0755 -d /build/reproducible-path/mdtraj-1.11.0/debian/tmp pybuild --install -i python{version} -p "3.14 3.13" --dest-dir=/build/reproducible-path/mdtraj-1.11.0/debian/tmp I: pybuild plugin_pyproject:186: Copying package built for python3.14 to destdir I: pybuild plugin_pyproject:186: Copying package built for python3.13 to destdir dh_install -a -O--buildsystem=pybuild dh_installdocs -a -O--buildsystem=pybuild install -m0755 -d debian/python3-mdtraj/usr/share/doc/python3-mdtraj install -p -m0644 debian/copyright debian/python3-mdtraj/usr/share/doc/python3-mdtraj/copyright dh_sphinxdoc -a -O--buildsystem=pybuild dh_sphinxdoc: warning: Sphinx documentation not found dh_installchangelogs -a -O--buildsystem=pybuild install -m0755 -d debian/python3-mdtraj/usr/share/doc/python3-mdtraj install -p -m0644 debian/.debhelper/generated/python3-mdtraj/dh_installchangelogs.dch.trimmed debian/python3-mdtraj/usr/share/doc/python3-mdtraj/changelog.Debian install -p -m0644 debian/.debhelper/generated/python3-mdtraj/dh_installchangelogs.dch.binnmu debian/python3-mdtraj/usr/share/doc/python3-mdtraj/changelog.Debian.i386 dh_installexamples -a -O--buildsystem=pybuild dh_installman -a -O--buildsystem=pybuild install -m0755 -d debian/python3-mdtraj/usr/share/man/man1/ install -p -m0644 ./debian/mdconvert-mdtraj.1 debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1 install -m0755 -d debian/python3-mdtraj/usr/share/man/man1/ install -p -m0644 ./debian/mdinspect.1 debian/python3-mdtraj/usr/share/man/man1/mdinspect.1 man-recode --to-code UTF-8 --suffix .dh-new debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1 man-recode --to-code UTF-8 --suffix .dh-new debian/python3-mdtraj/usr/share/man/man1/mdinspect.1 mv debian/python3-mdtraj/usr/share/man/man1/mdinspect.1.dh-new debian/python3-mdtraj/usr/share/man/man1/mdinspect.1 chmod 0644 -- debian/python3-mdtraj/usr/share/man/man1/mdinspect.1 mv debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1.dh-new debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1 chmod 0644 -- debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1 dh_python3 -a -O--buildsystem=pybuild D: dh_python3 dh_python3:184: version: 6.20251204.1 D: dh_python3 dh_python3:185: argv: ['/usr/bin/dh_python3', '-a', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:186: options: Namespace(guess_deps=True, skip_private=False, verbose=True, arch=True, package=None, no_package=None, remaining_packages=False, compile_all=False, vrange=None, regexpr=None, accept_upstream_versions=False, depends=None, depends_section=None, recommends=None, recommends_section=None, suggests=None, suggests_section=None, requires=None, shebang=None, ignore_shebangs=False, clean_dbg_pkg=True, no_ext_rename=False, no_shebang_rewrite=False, private_dir=None, O=['--buildsystem=pybuild']) D: dh_python3 dh_python3:187: supported Python versions: 3.13,3.14 (default=3.13) D: dh_python3 debhelper:174: source=mdtraj, binary packages=['python3-mdtraj'] D: dh_python3 dh_python3:209: processing package python3-mdtraj... D: dh_python3 fs:51: moving files from debian/python3-mdtraj/usr/lib/python3.13/dist-packages to debian/python3-mdtraj/usr/lib/python3/dist-packages/ D: dh_python3 fs:51: moving files from debian/python3-mdtraj/usr/lib/python3.14/dist-packages to debian/python3-mdtraj/usr/lib/python3/dist-packages/ D: dh_python3 fs:249: removing dist-packages/.pytest_cache D: dh_python3 fs:178: Writing INSTALLER in debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj-1.11.0.dist-info D: dh_python3 fs:189: Deleting RECORD in debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj-1.11.0.dist-info I: dh_python3 tools:114: replacing shebang in debian/python3-mdtraj/usr/bin/mdconvert-mdtraj I: dh_python3 tools:114: replacing shebang in debian/python3-mdtraj/usr/bin/mdinspect D: dh_python3 fs:349: package python3-mdtraj details = {'requires.txt': set(), 'egg-info': set(), 'dist-info': {'debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj-1.11.0.dist-info/METADATA'}, 'nsp.txt': set(), 'shebangs': {/usr/bin/python3, /usr/bin/python3}, 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.14'), Version('3.13')}, 'ext_stableabi': set(), 'ext_no_version': set()} D: dh_python3 depends:103: generating dependencies for package python3-mdtraj D: dh_python3 pydist:175: trying to find dependency for numpy<3,>=1.25.0 (python=None) D: dh_python3 pydist:209: dependency: module numpy is known to pydist: [{'name': 'numpy', 'vrange': '', 'dependency': 'python3-numpy', 'standard': None, 'rules': [], 'versions': {Version('3.14'), Version('3.13')}}] D: dh_python3 pydist:277: dependency: included in build-deps with limits D: dh_python3 pydist:175: trying to find dependency for scipy (python=None) D: dh_python3 pydist:209: dependency: module scipy is known to pydist: [{'name': 'scipy', 'vrange': '', 'dependency': 'python3-scipy', 'standard': None, 'rules': [], 'versions': {Version('3.14'), Version('3.13')}}] D: dh_python3 pydist:284: dependency: included in build-deps D: dh_python3 pydist:175: trying to find dependency for pyparsing (python=None) D: dh_python3 pydist:209: dependency: module pyparsing is known to pydist: [{'name': 'pyparsing', 'vrange': '', 'dependency': 'python3-pyparsing', 'standard': None, 'rules': [], 'versions': {Version('3.14'), Version('3.13')}}] D: dh_python3 pydist:284: dependency: included in build-deps D: dh_python3 pydist:175: trying to find dependency for packaging (python=None) D: dh_python3 pydist:209: dependency: module packaging is known to pydist: [{'name': 'packaging', 'vrange': '', 'dependency': 'python3-packaging', 'standard': None, 'rules': [], 'versions': {Version('3.14'), Version('3.13')}}] D: dh_python3 pydist:284: dependency: included in build-deps D: dh_python3 depends:252: D={'python3 (<< 3.15)', 'python3-pyparsing', 'python3-scipy', 'python3-packaging', 'python3 (>= 3.13~)', 'python3:any', 'python3-numpy (>= 2.0.0~)'}; R=[]; S=[]; E=[], B=[]; RT=[] debian/rules execute_after_dh_python3 make[1]: Entering directory '/build/reproducible-path/mdtraj-1.11.0' # setup.py builds the static lib libtheobald.a for each python version # but dh_python3 can't tell the difference between the different builds, # since py3.11 compiles libtheobald.o with -fwrapv, where py3.12 uses -fno-strict-overflow # So clean up manually (assume the binary difference is not an issue) rm -f debian/python3-mdtraj/usr/lib/python3.*/dist-packages/mdtraj/core/lib/libtheobald.a for d in debian/python3-mdtraj/usr/lib/python3.*/dist-packages/mdtraj/core/lib; do if [-d $d]; then rmdir -p --ignore-fail-on-non-empty $d; fi; done /bin/sh: 1: [-d: not found make[1]: Leaving directory '/build/reproducible-path/mdtraj-1.11.0' dh_installsystemduser -a -O--buildsystem=pybuild dh_perl -a -O--buildsystem=pybuild dh_link -a -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--buildsystem=pybuild dh_compress -a -O--buildsystem=pybuild cd debian/python3-mdtraj chmod a-x usr/share/doc/python3-mdtraj/changelog.Debian usr/share/doc/python3-mdtraj/changelog.Debian.i386 usr/share/man/man1/mdconvert-mdtraj.1 usr/share/man/man1/mdinspect.1 gzip -9nf usr/share/doc/python3-mdtraj/changelog.Debian usr/share/doc/python3-mdtraj/changelog.Debian.i386 usr/share/man/man1/mdconvert-mdtraj.1 usr/share/man/man1/mdinspect.1 cd '/build/reproducible-path/mdtraj-1.11.0' dh_fixperms -a -O--buildsystem=pybuild find debian/python3-mdtraj ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python3-mdtraj/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-mdtraj/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-mdtraj/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-mdtraj/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-mdtraj -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-mdtraj/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-mdtraj/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -a -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild install -m0755 -d debian/python3-mdtraj/usr/lib/debug/.dwz/i386-linux-gnu dwz -mdebian/python3-mdtraj/usr/lib/debug/.dwz/i386-linux-gnu/python3-mdtraj.debug -M/usr/lib/debug/.dwz/i386-linux-gnu/python3-mdtraj.debug -- debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-314-i386-linux-gnu.so objcopy --compress-debug-sections debian/python3-mdtraj/usr/lib/debug/.dwz/i386-linux-gnu/python3-mdtraj.debug chmod 0644 -- debian/python3-mdtraj/usr/lib/debug/.dwz/i386-linux-gnu/python3-mdtraj.debug dh_strip -a -O--buildsystem=pybuild install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/63 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/63/e28b00d6c29eca3ac2e2f8118b756a31f48af8.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/63/e28b00d6c29eca3ac2e2f8118b756a31f48af8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/63/e28b00d6c29eca3ac2e2f8118b756a31f48af8.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/c9 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/c9/407558d73e23ef394b39efe4a10c4e10ce42d7.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/c9/407558d73e23ef394b39efe4a10c4e10ce42d7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/c9/407558d73e23ef394b39efe4a10c4e10ce42d7.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/7c objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/7c/0142ae6a623eef627bcb5ac618e9ebf6adbfc7.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/7c/0142ae6a623eef627bcb5ac618e9ebf6adbfc7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/7c/0142ae6a623eef627bcb5ac618e9ebf6adbfc7.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/7a objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/7a/90b384b4917c95aec787195acd4a1759ef02d4.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/7a/90b384b4917c95aec787195acd4a1759ef02d4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/7a/90b384b4917c95aec787195acd4a1759ef02d4.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/70 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/70/c7eae164390a0108cfbca8f2900e8182ece584.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/70/c7eae164390a0108cfbca8f2900e8182ece584.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/70/c7eae164390a0108cfbca8f2900e8182ece584.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/22 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/22/098d65189177aff3e814240a148d23a1191b06.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/22/098d65189177aff3e814240a148d23a1191b06.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/22/098d65189177aff3e814240a148d23a1191b06.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/66 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/66/6de00f9bc1c76cdc1193c6b66411174b560619.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/66/6de00f9bc1c76cdc1193c6b66411174b560619.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/66/6de00f9bc1c76cdc1193c6b66411174b560619.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/cf objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/cf/fb6173d515f969825cb8b244d775208bd03b2f.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/cf/fb6173d515f969825cb8b244d775208bd03b2f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/cf/fb6173d515f969825cb8b244d775208bd03b2f.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/55 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/55/6e67017f6d7daf26474ce5dd14318e3d1c9c8b.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/55/6e67017f6d7daf26474ce5dd14318e3d1c9c8b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/55/6e67017f6d7daf26474ce5dd14318e3d1c9c8b.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/39 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/39/97151bb056d93fe18dc6be7917a8fdf98a41de.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/39/97151bb056d93fe18dc6be7917a8fdf98a41de.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/39/97151bb056d93fe18dc6be7917a8fdf98a41de.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/2b objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/2b/68cc3d7df8f3b4daed2cf582effd58b2a8f0ca.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/2b/68cc3d7df8f3b4daed2cf582effd58b2a8f0ca.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/2b/68cc3d7df8f3b4daed2cf582effd58b2a8f0ca.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/bd objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/bd/cccb05478ce986804b00ba53e37acb6dde66a4.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/bd/cccb05478ce986804b00ba53e37acb6dde66a4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/bd/cccb05478ce986804b00ba53e37acb6dde66a4.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/1d objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/1d/fe9e105c1d2c6691cecc701898ca8caa2cbd0a.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/1d/fe9e105c1d2c6691cecc701898ca8caa2cbd0a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/1d/fe9e105c1d2c6691cecc701898ca8caa2cbd0a.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/a3 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/a3/aa8707a804def4e2fc698401ed67cd695ced87.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/a3/aa8707a804def4e2fc698401ed67cd695ced87.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/a3/aa8707a804def4e2fc698401ed67cd695ced87.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/45 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/45/d38b001500b77589b660b988bf1755ef10530f.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/45/d38b001500b77589b660b988bf1755ef10530f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/45/d38b001500b77589b660b988bf1755ef10530f.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/86 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/86/1afb17a504d9f1ff34a10051fdf6f40b747e81.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/86/1afb17a504d9f1ff34a10051fdf6f40b747e81.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/86/1afb17a504d9f1ff34a10051fdf6f40b747e81.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/af objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/af/565b034aca4748360ca39cb8865f0d39207b66.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/af/565b034aca4748360ca39cb8865f0d39207b66.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/af/565b034aca4748360ca39cb8865f0d39207b66.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/db objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/db/571768e696237b6ad282722d63a4f28f739621.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/db/571768e696237b6ad282722d63a4f28f739621.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/db/571768e696237b6ad282722d63a4f28f739621.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/af objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-314-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/af/d40ef00190e16a1d7d02cbb04898a1a6cd44a9.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/af/d40ef00190e16a1d7d02cbb04898a1a6cd44a9.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-314-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/af/d40ef00190e16a1d7d02cbb04898a1a6cd44a9.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-314-i386-linux-gnu.so install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-i386-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/41/f1ec4f60808bcf67a563e0a346f7a75f1006e2.debug chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/41/f1ec4f60808bcf67a563e0a346f7a75f1006e2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-i386-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/41/f1ec4f60808bcf67a563e0a346f7a75f1006e2.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-i386-linux-gnu.so strip --strip-debug --remove-section=.comment --remove-section=.note --enable-deterministic-archives -R .gnu.lto_\* -R .gnu.debuglto_\* -N __gnu_lto_slim -N __gnu_lto_v1 debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/core/lib/libtheobald.a install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/python3-mdtraj/usr/lib/debug/.dwz/i386-linux-gnu debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/python3-mdtraj/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/python3-mdtraj/usr/lib/debug install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/share/doc ln -s python3-mdtraj debian/.debhelper/python3-mdtraj/dbgsym-root/usr/share/doc/python3-mdtraj-dbgsym install -m0755 -d debian/.debhelper/python3-mdtraj dh_makeshlibs -a -O--buildsystem=pybuild rm -f debian/python3-mdtraj/DEBIAN/shlibs dh_shlibdeps -a -O--buildsystem=pybuild install -m0755 -d debian/python3-mdtraj/DEBIAN dpkg-shlibdeps -Tdebian/python3-mdtraj.substvars debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-314-i386-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-i386-linux-gnu.so dh_installdeb -a -O--buildsystem=pybuild install -m0755 -d debian/python3-mdtraj/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-mdtraj/DEBIAN/postinst cat debian/python3-mdtraj.postinst.debhelper >> debian/python3-mdtraj/DEBIAN/postinst chmod 0755 -- debian/python3-mdtraj/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-mdtraj/DEBIAN/prerm cat debian/python3-mdtraj.prerm.debhelper >> debian/python3-mdtraj/DEBIAN/prerm chmod 0755 -- debian/python3-mdtraj/DEBIAN/prerm dh_numpy3 -a -O--buildsystem=pybuild mv debian/python3-mdtraj.substvars.new debian/python3-mdtraj.substvars dh_gencontrol -a -O--buildsystem=pybuild install -m0755 -d debian/python3-mdtraj/DEBIAN echo misc:Depends= >> debian/python3-mdtraj.substvars echo misc:Pre-Depends= >> debian/python3-mdtraj.substvars install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/DEBIAN dpkg-gencontrol -ppython3-mdtraj -ldebian/changelog -Tdebian/python3-mdtraj.substvars -cdebian/control -Pdebian/.debhelper/python3-mdtraj/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=python3-mdtraj-dbgsym -DDepends="python3-mdtraj (= \${binary:Version})" -DDescription="debug symbols for python3-mdtraj" -DBuild-Ids="1dfe9e105c1d2c6691cecc701898ca8caa2cbd0a 22098d65189177aff3e814240a148d23a1191b06 2b68cc3d7df8f3b4daed2cf582effd58b2a8f0ca 3997151bb056d93fe18dc6be7917a8fdf98a41de 41f1ec4f60808bcf67a563e0a346f7a75f1006e2 45d38b001500b77589b660b988bf1755ef10530f 556e67017f6d7daf26474ce5dd14318e3d1c9c8b 63e28b00d6c29eca3ac2e2f8118b756a31f48af8 666de00f9bc1c76cdc1193c6b66411174b560619 70c7eae164390a0108cfbca8f2900e8182ece584 7a90b384b4917c95aec787195acd4a1759ef02d4 7c0142ae6a623eef627bcb5ac618e9ebf6adbfc7 861afb17a504d9f1ff34a10051fdf6f40b747e81 a3aa8707a804def4e2fc698401ed67cd695ced87 af565b034aca4748360ca39cb8865f0d39207b66 afd40ef00190e16a1d7d02cbb04898a1a6cd44a9 bdcccb05478ce986804b00ba53e37acb6dde66a4 c9407558d73e23ef394b39efe4a10c4e10ce42d7 cffb6173d515f969825cb8b244d775208bd03b2f db571768e696237b6ad282722d63a4f28f739621" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/DEBIAN/control dpkg-gencontrol -ppython3-mdtraj -ldebian/changelog -Tdebian/python3-mdtraj.substvars -cdebian/control -Pdebian/python3-mdtraj chmod 0644 -- debian/python3-mdtraj/DEBIAN/control dh_md5sums -a -O--buildsystem=pybuild install -m0755 -d debian/python3-mdtraj/DEBIAN cd debian/python3-mdtraj >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/python3-mdtraj/DEBIAN/md5sums install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/DEBIAN cd debian/.debhelper/python3-mdtraj/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/DEBIAN/md5sums dh_builddeb -a -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-mdtraj .. dpkg-deb --root-owner-group --build debian/.debhelper/python3-mdtraj/dbgsym-root .. dpkg-deb: building package 'python3-mdtraj' in '../python3-mdtraj_1.11.0-2+b1_i386.deb'. dpkg-deb: building package 'python3-mdtraj-dbgsym' in '../python3-mdtraj-dbgsym_1.11.0-2+b1_i386.deb'. dpkg-genbuildinfo --build=any -O../mdtraj_1.11.0-2+b1_i386.buildinfo dpkg-genchanges --build=any -O../mdtraj_1.11.0-2+b1_i386.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-source: info: using options from mdtraj-1.11.0/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2025-12-14T08:23:34Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Sun, 14 Dec 2025 08:23:35 +0000 | +------------------------------------------------------------------------------+ mdtraj_1.11.0-2+b1_i386.changes: -------------------------------- Format: 1.8 Date: Tue, 09 Dec 2025 14:58:09 +0000 Source: mdtraj (1.11.0-2) Binary: python3-mdtraj python3-mdtraj-dbgsym Binary-Only: yes Architecture: i386 Version: 1.11.0-2+b1 Distribution: unstable Urgency: low Maintainer: Debichem Team Changed-By: all / amd64 / i386 Build Daemon (x86-conova-02) Description: python3-mdtraj - Read, write and analyze MD trajectories in Python Changes: mdtraj (1.11.0-2+b1) sid; urgency=low, binary-only=yes . * Binary-only non-maintainer upload for i386; no source changes. * Rebuild with Python 3.14 as supported Checksums-Sha1: 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Dec 2025 08:23:36 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: mdtraj (1.11.0-2) Binary: python3-mdtraj python3-mdtraj-dbgsym Architecture: i386 Version: 1.11.0-2+b1 Binary-Only-Changes: mdtraj (1.11.0-2+b1) sid; urgency=low, binary-only=yes . * Binary-only non-maintainer upload for i386; no source changes. * Rebuild with Python 3.14 as supported . -- all / amd64 / i386 Build Daemon (x86-conova-02) Tue, 09 Dec 2025 14:58:09 +0000 Checksums-Md5: 45b0112fd33944eb3723c37892f41f36 11163276 python3-mdtraj-dbgsym_1.11.0-2+b1_i386.deb c4b450d09826e758a6b614a88d9be624 1339932 python3-mdtraj_1.11.0-2+b1_i386.deb Checksums-Sha1: 40f48f2d8a2de7186dbbedc8b23cad63b2cb7552 11163276 python3-mdtraj-dbgsym_1.11.0-2+b1_i386.deb 81e87178136c187ad4c5b67d7b64d9d94ed8ec66 1339932 python3-mdtraj_1.11.0-2+b1_i386.deb Checksums-Sha256: 43be8d95c7e4d1291bace991614df744eaf50347850ce51bc5c17acaa480302a 11163276 python3-mdtraj-dbgsym_1.11.0-2+b1_i386.deb 62a696cd12150713495de41afcfb3521209a616ed5bfdf173342e5e47f700ab2 1339932 python3-mdtraj_1.11.0-2+b1_i386.deb Build-Origin: Debian Build-Architecture: i386 Build-Date: Sun, 14 Dec 2025 08:23:34 +0000 Build-Path: /build/reproducible-path/mdtraj-1.11.0 Installed-Build-Depends: autoconf (= 2.72-3.1), automake (= 1:1.18.1-3), autopoint (= 0.23.2-1), autotools-dev (= 20240727.1), base-files (= 14), base-passwd (= 3.6.8), bash (= 5.3-1), binutils (= 2.45.50.20251201-1), binutils-common (= 2.45.50.20251201-1), binutils-i686-linux-gnu (= 2.45.50.20251201-1), bsdextrautils (= 2.41.2-4), build-essential (= 12.12), bzip2 (= 1.0.8-6), ca-certificates (= 20250419), coreutils (= 9.7-3), cpp (= 4:15.2.0-4), cpp-15 (= 15.2.0-10), cpp-15-i686-linux-gnu (= 15.2.0-10), cpp-i686-linux-gnu (= 4:15.2.0-4), cython3 (= 3.1.6+dfsg-2+b1), dash (= 0.5.12-12), debconf (= 1.5.91), debhelper (= 13.28), debianutils (= 5.23.2), dh-autoreconf (= 21), dh-python (= 6.20251204.1), dh-strip-nondeterminism (= 1.15.0-1), diffutils (= 1:3.12-1), docutils-common (= 0.22.3+dfsg-1), dpkg (= 1.22.21), dpkg-dev (= 1.22.21), dwz (= 0.16-2), file (= 1:5.46-5), findutils (= 4.10.0-3), fonts-mathjax (= 2.7.9+dfsg-1), g++ (= 4:15.2.0-4), g++-15 (= 15.2.0-10), g++-15-i686-linux-gnu (= 15.2.0-10), g++-i686-linux-gnu (= 4:15.2.0-4), gcc (= 4:15.2.0-4), gcc-15 (= 15.2.0-10), gcc-15-base (= 15.2.0-10), gcc-15-i686-linux-gnu (= 15.2.0-10), gcc-i686-linux-gnu (= 4:15.2.0-4), gettext (= 0.23.2-1), gettext-base (= 0.23.2-1), grep (= 3.12-1), groff-base (= 1.23.0-10), gzip (= 1.13-1), hostname (= 3.25), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2+b1), libaec0 (= 1.1.4-2), libarchive-zip-perl (= 1.68-1), libasan8 (= 15.2.0-10), libatomic1 (= 15.2.0-10), libattr1 (= 1:2.5.2-3), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b1), libbinutils (= 2.45.50.20251201-1), libblas3 (= 3.12.1-7), libblkid1 (= 2.41.2-4), libblosc1 (= 1.21.5+ds-2), libblosc2-4 (= 2.17.1+ds-2), libbrotli1 (= 1.1.0-2+b9), libbsd0 (= 0.12.2-2), libbz2-1.0 (= 1.0.8-6), libc-bin (= 2.42-5), libc-dev-bin (= 2.42-5), libc-gconv-modules-extra (= 2.42-5), libc6 (= 2.42-5), libc6-dev (= 2.42-5), libcap-ng0 (= 0.8.5-4+b2), libcap2 (= 1:2.75-10+b2), libcc1-0 (= 15.2.0-10), libcom-err2 (= 1.47.2-3+b4), libcrypt-dev (= 1:4.5.1-1), libcrypt1 (= 1:4.5.1-1), libctf-nobfd0 (= 2.45.50.20251201-1), libctf0 (= 2.45.50.20251201-1), libcurl3t64-gnutls (= 8.17.0-3), libcurl4t64 (= 8.17.0-3), libdb5.3t64 (= 5.3.28+dfsg2-11), libdebconfclient0 (= 0.282), libdebhelper-perl (= 13.28), libdpkg-perl (= 1.22.21), libelf1t64 (= 0.194-1), libexpat1 (= 2.7.3-1), libexpat1-dev (= 2.7.3-1), libffi8 (= 3.5.2-3), libfile-stripnondeterminism-perl (= 1.15.0-1), libgcc-15-dev (= 15.2.0-10), libgcc-s1 (= 15.2.0-10), libgdbm-compat4t64 (= 1.26-1), libgdbm6t64 (= 1.26-1), libgfortran5 (= 15.2.0-10), libgmp10 (= 2:6.3.0+dfsg-5), libgnutls30t64 (= 3.8.11-3), libgomp1 (= 15.2.0-10), libgprofng0 (= 2.45.50.20251201-1), libgssapi-krb5-2 (= 1.22.1-2), libhdf5-310 (= 1.14.5+repack-4), libhdf5-hl-310 (= 1.14.5+repack-4), libhogweed6t64 (= 3.10.2-1), libidn2-0 (= 2.3.8-4), libisl23 (= 0.27-1), libitm1 (= 15.2.0-10), libjansson4 (= 2.14-2+b3), libjs-mathjax (= 2.7.9+dfsg-1), libjs-sphinxdoc (= 8.2.3-11), libjson-perl (= 4.10000-1), libk5crypto3 (= 1.22.1-2), libkeyutils1 (= 1.6.3-6), libkrb5-3 (= 1.22.1-2), libkrb5support0 (= 1.22.1-2), liblapack3 (= 3.12.1-7), libldap2 (= 2.6.10+dfsg-1), liblz4-1 (= 1.10.0-6), liblzma5 (= 5.8.1-2), liblzo2-2 (= 2.10-3+b1), libmagic-mgc (= 1:5.46-5), libmagic1t64 (= 1:5.46-5), libmd0 (= 1.1.0-2+b1), libmount1 (= 2.41.2-4), libmpc3 (= 1.3.1-2), libmpfr6 (= 4.2.2-2), libncursesw6 (= 6.5+20251123-1), libnetcdf22 (= 1:4.9.3-1+b1), libnettle8t64 (= 3.10.2-1), libnghttp2-14 (= 1.64.0-1.1+b1), libnghttp3-9 (= 1.12.0-1), libngtcp2-16 (= 1.16.0-1), libngtcp2-crypto-gnutls8 (= 1.16.0-1), libngtcp2-crypto-ossl0 (= 1.16.0-1), libnorm1t64 (= 1.5.9+dfsg-4), libp11-kit0 (= 0.25.10-1), libpam-modules (= 1.7.0-5), libpam-modules-bin (= 1.7.0-5), libpam-runtime (= 1.7.0-5), libpam0g (= 1.7.0-5), libpcre2-8-0 (= 10.46-1), libperl5.40 (= 5.40.1-7), libpgm-5.3-0t64 (= 5.3.128~dfsg-2.1+b1), libpipeline1 (= 1.5.8-2), libpsl5t64 (= 0.21.2-1.1+b1), libpython3-all-dev (= 3.13.9-2), libpython3-dev (= 3.13.9-2), libpython3-stdlib (= 3.13.9-2), libpython3.13 (= 3.13.11-1+b1), libpython3.13-dev (= 3.13.11-1+b1), libpython3.13-minimal (= 3.13.11-1+b1), libpython3.13-stdlib (= 3.13.11-1+b1), libpython3.14 (= 3.14.2-1+b1), libpython3.14-dev (= 3.14.2-1+b1), libpython3.14-minimal (= 3.14.2-1+b1), libpython3.14-stdlib (= 3.14.2-1+b1), libqhull-r8.0 (= 2020.2-7), libquadmath0 (= 15.2.0-10), libreadline8t64 (= 8.3-3), librtmp1 (= 2.4+20151223.gitfa8646d.1-3), libsasl2-2 (= 2.1.28+dfsg1-10), libsasl2-modules-db (= 2.1.28+dfsg1-10), libseccomp2 (= 2.6.0-2+b1), libselinux1 (= 3.9-4+b1), libsframe2 (= 2.45.50.20251201-1), libsmartcols1 (= 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python-babel-localedata (= 2.17.0-2), python-tables-data (= 3.10.2-3), python-tinycss2-common (= 1.4.0-2), python3 (= 3.13.9-2), python3-alabaster (= 0.7.16-0.1), python3-all (= 3.13.9-2), python3-all-dev (= 3.13.9-2), python3-attr (= 25.4.0-1), python3-autocommand (= 2.2.2-3), python3-babel (= 2.17.0-2), python3-bleach (= 6.3.0-1), python3-bs4 (= 4.14.3-1), python3-build (= 1.2.2-4), python3-certifi (= 2025.11.12+ds-1), python3-cffi-backend (= 2.0.0-2+b1), python3-cftime (= 1.6.5-1+b1), python3-chardet (= 5.2.0+dfsg-2), python3-charset-normalizer (= 3.4.4-2), python3-cpuinfo (= 9.0.0+git20221119-3), python3-dateutil (= 2.9.0-4), python3-decorator (= 5.2.1-2), python3-defusedxml (= 0.7.1-3), python3-dev (= 3.13.9-2), python3-docutils (= 0.22.3+dfsg-1), python3-fastjsonschema (= 2.21.1-1), python3-gsd (= 4.2.0-1), python3-html5lib (= 1.2-2), python3-idna (= 3.10-1), python3-imagesize (= 1.4.1-1), python3-inflect (= 7.5.0-1), python3-iniconfig (= 2.1.0-1), python3-installer (= 0.7.0+dfsg1-3), python3-jaraco.context (= 6.0.1-1), python3-jaraco.functools (= 4.1.0-1), python3-jaraco.text (= 4.0.0-1), python3-jinja2 (= 3.1.6-1), python3-jsonschema (= 4.25.1-2), python3-jsonschema-specifications (= 2023.12.1-4), python3-jupyter-client (= 8.6.3-3), python3-jupyter-core (= 5.7.2-5), python3-jupyterlab-pygments (= 0.2.2-3), python3-markupsafe (= 3.0.3-1+b1), python3-minimal (= 3.13.9-2), python3-mistune (= 3.1.4-1), python3-more-itertools (= 10.8.0-1), python3-nbclient (= 0.8.0-3), python3-nbconvert (= 7.16.6-1), python3-nbformat (= 5.9.1-1), python3-nbsphinx (= 0.9.5+ds-1), python3-netcdf4 (= 1.7.3-1+b1), python3-networkx (= 3.4.2-4), python3-numexpr (= 2.14.1-1+b1), python3-numpy (= 1:2.3.5+ds-2+b1), python3-numpy-dev (= 1:2.3.5+ds-2+b1), python3-packaging (= 25.0-1), python3-pandas (= 2.3.3+dfsg-3), python3-pandas-lib (= 2.3.3+dfsg-3), python3-pandocfilters (= 1.5.1-1), python3-pkg-resources (= 78.1.1-0.1), python3-platformdirs (= 4.4.0-1), python3-pluggy (= 1.6.0-1), python3-psutil (= 7.1.0-1), python3-pygments (= 2.18.0+dfsg-2), python3-pyparsing (= 3.1.3-1), python3-pyproject-hooks (= 1.2.0-1), python3-pytest (= 8.4.2-1), python3-pytest-rerunfailures (= 16.1-1), python3-pytz (= 2025.2-5), python3-referencing (= 0.36.2-2), python3-requests (= 2.32.5+dfsg-1), python3-roman-numerals (= 3.1.0-2), python3-rpds-py (= 0.28.0-1), python3-scipy (= 1.16.3-2), python3-setuptools (= 78.1.1-0.1), python3-snowballstemmer (= 3.0.1-1), python3-soupsieve (= 2.7-2), python3-sphinx (= 8.2.3-11), python3-tables (= 3.10.2-3), python3-tables-lib (= 3.10.2-3+b1), python3-tinycss2 (= 1.4.0-2), python3-tornado (= 6.5.2-3), python3-traitlets (= 5.14.3+really5.14.3-2), python3-typeguard (= 4.4.4-1), python3-typing-extensions (= 4.15.0-1), python3-urllib3 (= 2.5.0-1), python3-versioneer (= 0.29-1), python3-webencodings (= 0.5.1-5), python3-wheel (= 0.46.1-2), python3-zipp (= 3.23.0-1), python3-zmq (= 27.1.0-1+b1), python3.13 (= 3.13.11-1+b1), python3.13-dev (= 3.13.11-1+b1), python3.13-minimal (= 3.13.11-1+b1), python3.14 (= 3.14.2-1+b1), python3.14-dev (= 3.14.2-1+b1), python3.14-minimal (= 3.14.2-1+b1), readline-common (= 8.3-3), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.26), sgml-base (= 1.31+nmu1), sphinx-common (= 8.2.3-11), sysvinit-utils (= 3.15-6), tar (= 1.35+dfsg-3.1), tzdata (= 2025b-5), util-linux (= 2.41.2-4), xml-core (= 0.19), xz-utils (= 5.8.1-2), zlib1g (= 1:1.3.dfsg+really1.3.1-1+b1), zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1+b1) Environment: DEB_BUILD_OPTIONS="parallel=6" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" SOURCE_DATE_EPOCH="1765292289" +------------------------------------------------------------------------------+ | Package contents Sun, 14 Dec 2025 08:23:36 +0000 | +------------------------------------------------------------------------------+ python3-mdtraj-dbgsym_1.11.0-2+b1_i386.deb ------------------------------------------ new Debian package, version 2.0. size 11163276 bytes: 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273 bytes, 12 lines * postinst #!/bin/sh 419 bytes, 12 lines * prerm #!/bin/sh Package: python3-mdtraj Source: mdtraj (1.11.0-2) Version: 1.11.0-2+b1 Architecture: i386 Maintainer: Debichem Team Installed-Size: 7845 Depends: python3 (<< 3.15), python3 (>= 3.13~), python3-numpy (>= 2.0.0~), python3-numpy2-abi0 | python3-numpy-abi9, python3-packaging, python3-pyparsing, python3-scipy, python3:any, libc6 (>= 2.42), libgcc-s1 (>= 7), libgomp1 (>= 4.9), libstdc++6 (>= 13.1), python3-networkx, python3-pandas, python3-tables Recommends: python3-gsd, python3-netcdf4 Suggests: python-mdtraj-doc Section: python Priority: optional Homepage: https://mdtraj.org/ Description: Read, write and analyze MD trajectories in Python Read, write and analyze MD trajectories with only a few lines of Python code. . MDTraj is a Python library that allows users to manipulate molecular dynamics (MD) trajectories. Features include: * Wide MD format support, including pdb, xtc, trr, dcd, binpos, netcdf, mdcrd, prmtop, and more. * Extremely fast RMSD calculations (4x the speed of the original Theobald QCP). * Extensive analysis functions including those that compute bonds, angles, dihedrals, hydrogen bonds, secondary structure, and NMR observables. * Lightweight, Pythonic API. . MDTraj includes a command-line application, mdconvert-mdtraj, for converting trajectories between formats. . This package installs the library for Python 3, together with the command line utilities mdconvert-mdtraj and mdinspect. drwxr-xr-x root/root 0 2025-12-09 14:58 ./ drwxr-xr-x root/root 0 2025-12-09 14:58 ./usr/ drwxr-xr-x root/root 0 2025-12-09 14:58 ./usr/bin/ -rwxr-xr-x root/root 238 2025-12-09 14:58 ./usr/bin/mdconvert-mdtraj -rwxr-xr-x root/root 238 2025-12-09 14:58 ./usr/bin/mdinspect drwxr-xr-x root/root 0 2025-12-09 14:58 ./usr/lib/ drwxr-xr-x root/root 0 2025-12-09 14:58 ./usr/lib/python3/ drwxr-xr-x root/root 0 2025-12-09 14:58 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2025-12-09 14:58 ./usr/lib/python3/dist-packages/mdtraj-1.11.0.dist-info/ -rw-r--r-- root/root 7 2025-12-09 14:58 ./usr/lib/python3/dist-packages/mdtraj-1.11.0.dist-info/INSTALLER -rw-r--r-- root/root 2567 2025-12-09 14:58 ./usr/lib/python3/dist-packages/mdtraj-1.11.0.dist-info/METADATA -rw-r--r-- root/root 102 2025-12-09 14:58 ./usr/lib/python3/dist-packages/mdtraj-1.11.0.dist-info/WHEEL 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+------------------------------------------------------------------------------+ | Summary Sun, 14 Dec 2025 08:23:41 +0000 | +------------------------------------------------------------------------------+ Build Architecture: i386 Build Type: any Build-Space: 269280 Build-Time: 763 Distribution: unstable Host Architecture: i386 Install-Time: 6 Job: /srv/rebuilderd/tmp/rebuilderdfigOhS/inputs/mdtraj_1.11.0-2.dsc Machine Architecture: amd64 Package: mdtraj Package-Time: 784 Source-Version: 1.11.0-2 Space: 269280 Status: successful Version: 1.11.0-2+b1 -------------------------------------------------------------------------------- Finished at 2025-12-14T08:23:34Z Build needed 00:13:04, 269280k disk space build artifacts stored in /srv/rebuilderd/tmp/rebuilderdfigOhS/out checking python3-mdtraj-dbgsym_1.11.0-2+b1_i386.deb: size differs for python3-mdtraj-dbgsym_1.11.0-2+b1_i386.deb