=============================================================================== 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/rebuilderde3eNxT/inputs/rdkit_202503.6-3_arm64.buildinfo Source: rdkit Version: 202503.6-3 rebuilderd-worker node: codethink02-arm64 +------------------------------------------------------------------------------+ | Downloading sources Fri, 16 Jan 2026 04:30:42 +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 [57.6 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 [187 kB] Get:8 https://deb.debian.org/debian experimental InRelease [91.1 kB] Get:9 https://deb.debian.org/debian trixie/non-free-firmware Sources [6552 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 [118 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 [10.5 kB] Get:15 https://deb.debian.org/debian trixie-backports/non-free-firmware Sources [2468 B] Get:16 https://deb.debian.org/debian trixie-backports/main Sources [126 kB] Get:17 https://deb.debian.org/debian forky/non-free-firmware Sources [7700 B] Get:18 https://deb.debian.org/debian forky/main Sources [10.6 MB] Get:19 https://deb.debian.org/debian sid/non-free-firmware Sources [9688 B] Get:20 https://deb.debian.org/debian sid/main Sources [11.2 MB] Get:21 https://deb.debian.org/debian experimental/main Sources [390 kB] Get:22 https://deb.debian.org/debian experimental/non-free-firmware Sources [3180 B] Fetched 33.8 MB in 3s (10.6 MB/s) Reading package lists... 'https://deb.debian.org/debian/pool/main/r/rdkit/rdkit_202503.6-3.dsc' rdkit_202503.6-3.dsc 3148 SHA256:c2f3e5f5530a56ec6e2f97379bf77e693ee7a342ff083833a2884688b4822dbb 'https://deb.debian.org/debian/pool/main/r/rdkit/rdkit_202503.6.orig.tar.xz' rdkit_202503.6.orig.tar.xz 64217064 SHA256:88fa533178ab825e336ad22a6d0b8f1d392f038a99dec8787f25ad27d4a5544a 'https://deb.debian.org/debian/pool/main/r/rdkit/rdkit_202503.6-3.debian.tar.xz' rdkit_202503.6-3.debian.tar.xz 49300 SHA256:6d69ea5291ed8e5a98a35508878e44dac3f0bc34f31978ef05c6fd0472987efa 88fa533178ab825e336ad22a6d0b8f1d392f038a99dec8787f25ad27d4a5544a rdkit_202503.6.orig.tar.xz 6d69ea5291ed8e5a98a35508878e44dac3f0bc34f31978ef05c6fd0472987efa rdkit_202503.6-3.debian.tar.xz c2f3e5f5530a56ec6e2f97379bf77e693ee7a342ff083833a2884688b4822dbb rdkit_202503.6-3.dsc +------------------------------------------------------------------------------+ | Calling debrebuild Fri, 16 Jan 2026 04:30:47 +0000 | +------------------------------------------------------------------------------+ Rebuilding rdkit=202503.6-3 in /srv/rebuilderd/tmp/rebuilderde3eNxT/inputs now. + nice /usr/bin/debrebuild --buildresult=/srv/rebuilderd/tmp/rebuilderde3eNxT/out --builder=sbuild+unshare --cache=/srv/rebuilderd/cache -- /srv/rebuilderd/tmp/rebuilderde3eNxT/inputs/rdkit_202503.6-3_arm64.buildinfo /srv/rebuilderd/tmp/rebuilderde3eNxT/inputs/rdkit_202503.6-3_arm64.buildinfo contains a GPG signature which has NOT been validated Using defined Build-Path: /build/reproducible-path/rdkit-202503.6 I: verifying dsc... successful! Get:1 http://deb.debian.org/debian unstable InRelease [187 kB] Get:2 http://snapshot.debian.org/archive/debian/20260115T082023Z forky InRelease [137 kB] Get:3 http://deb.debian.org/debian unstable/main arm64 Packages [10.1 MB] Get:4 http://snapshot.debian.org/archive/debian/20260115T082023Z forky/main arm64 Packages [9574 kB] Fetched 20.0 MB in 5s (4083 kB/s) Reading package lists... W: http://snapshot.debian.org/archive/debian/20260115T082023Z/dists/forky/InRelease: Loading /etc/apt/trusted.gpg from deprecated option Dir::Etc::Trusted Get:1 http://deb.debian.org/debian unstable/main arm64 libcrypt1 arm64 1:4.5.1-1 [93.9 kB] Fetched 93.9 kB in 0s (4388 kB/s) dpkg-name: info: moved 'libcrypt1_1%3a4.5.1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpm3bh6478/libcrypt1_4.5.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 imagemagick-7-common all 8:7.1.2.12+dfsg1-1 [69.8 kB] Fetched 69.8 kB in 0s (3109 kB/s) dpkg-name: info: moved 'imagemagick-7-common_8%3a7.1.2.12+dfsg1-1_all.deb' to '/srv/rebuilderd/tmp/tmp6plt6y5n/imagemagick-7-common_7.1.2.12+dfsg1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-regex1.83.0 arm64 1.83.0-5+b1 [319 kB] Fetched 319 kB in 0s (29.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaqn9d3w5/libboost-regex1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-thread-dev arm64 1.83.0.2+b2 [3616 B] Fetched 3616 B in 0s (176 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpawdil4zl/libboost-thread-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfontbox-java all 1:1.8.16-5 [211 kB] Fetched 211 kB in 0s (8824 kB/s) dpkg-name: info: moved 'libfontbox-java_1%3a1.8.16-5_all.deb' to '/srv/rebuilderd/tmp/tmpgutwcm0c/libfontbox-java_1.8.16-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-11 [626 kB] Fetched 626 kB in 0s (26.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7x3fy526/libdb5.3t64_5.3.28+dfsg2-11_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 gcc-15-base arm64 15.2.0-12 [54.2 kB] Fetched 54.2 kB in 0s (2450 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr7pm5zv_/gcc-15-base_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsframe2 arm64 2.45.50.20251209-1 [79.7 kB] Fetched 79.7 kB in 0s (2605 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx7rnn9zm/libsframe2_2.45.50.20251209-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libaom3 arm64 3.13.1-2 [1632 kB] Fetched 1632 kB in 0s (50.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4n00txh5/libaom3_3.13.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libyaml-0-2 arm64 0.2.5-2+b1 [47.8 kB] Fetched 47.8 kB in 0s (2340 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_4erp8hj/libyaml-0-2_0.2.5-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpcre2-32-0 arm64 10.46-1 [238 kB] Fetched 238 kB in 0s (12.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy8d20bex/libpcre2-32-0_10.46-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Fetched 115 kB in 0s (5906 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsb3d14re/libxcb-render0_1.17.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxt6t64 arm64 1:1.2.1-1.3 [182 kB] Fetched 182 kB in 0s (8107 kB/s) dpkg-name: info: moved 'libxt6t64_1%3a1.2.1-1.3_arm64.deb' to '/srv/rebuilderd/tmp/tmps4qok2i0/libxt6t64_1.2.1-1.3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 g++-aarch64-linux-gnu arm64 4:15.2.0-4 [1196 B] Fetched 1196 B in 0s (54.7 kB/s) dpkg-name: info: moved 'g++-aarch64-linux-gnu_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpg6b8tgp8/g++-aarch64-linux-gnu_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 bison arm64 2:3.8.2+dfsg-1+b2 [1149 kB] Fetched 1149 kB in 0s (41.8 MB/s) dpkg-name: info: moved 'bison_2%3a3.8.2+dfsg-1+b2_arm64.deb' to '/srv/rebuilderd/tmp/tmpvghfw9c8/bison_3.8.2+dfsg-1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-greenlet arm64 3.2.4-3 [183 kB] Fetched 183 kB in 0s (8561 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcp2zx2_m/python3-greenlet_3.2.4-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpcre2-8-0 arm64 10.46-1 [262 kB] Fetched 262 kB in 0s (12.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqdghy2m5/libpcre2-8-0_10.46-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 preview-latex-style all 13.2-1.1 [350 kB] Fetched 350 kB in 0s (14.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw2bg8g_9/preview-latex-style_13.2-1.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-chrono1.83.0t64 arm64 1.83.0-5+b1 [240 kB] Fetched 240 kB in 0s (11.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuubdb7fm/libboost-chrono1.83.0t64_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblsan0 arm64 15.2.0-12 [1194 kB] Fetched 1194 kB in 0s (47.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuwyy19u1/liblsan0_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libz3-4 arm64 4.13.3-1 [7507 kB] Fetched 7507 kB in 0s (107 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj8zwwlf2/libz3-4_4.13.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Fetched 26.1 kB in 0s (1218 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphhv8m62j/pkgconf_1.8.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxcb1-dev arm64 1.17.0-2+b1 [182 kB] Fetched 182 kB in 0s (7163 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplh51508z/libxcb1-dev_1.17.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-base all 2025.20251127-1 [23.1 MB] Fetched 23.1 MB in 0s (100 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf7z0k3oc/texlive-base_2025.20251127-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 gcc-aarch64-linux-gnu arm64 4:15.2.0-4 [1432 B] Fetched 1432 B in 0s (67.7 kB/s) dpkg-name: info: moved 'gcc-aarch64-linux-gnu_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpweb8co95/gcc-aarch64-linux-gnu_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-iostreams1.83-dev arm64 1.83.0-5+b1 [262 kB] Fetched 262 kB in 0s (12.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc1fwu9gt/libboost-iostreams1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Fetched 30.4 kB in 0s (1369 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfr90exmt/libjbig0_2.1-6.1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmagickwand-7.q16-10 arm64 8:7.1.2.12+dfsg1-1 [271 kB] Fetched 271 kB in 0s (8841 kB/s) dpkg-name: info: moved 'libmagickwand-7.q16-10_8%3a7.1.2.12+dfsg1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpgmgvyfou/libmagickwand-7.q16-10_7.1.2.12+dfsg1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Fetched 22.1 kB in 0s (1002 kB/s) dpkg-name: info: moved 'xorg-sgml-doctools_1%3a1.11-1.1_all.deb' to '/srv/rebuilderd/tmp/tmp27bu5cnz/xorg-sgml-doctools_1.11-1.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.9-3 [10.5 kB] Fetched 10.5 kB in 0s (480 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnyc4xf49/libpython3-stdlib_3.13.9-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 adduser all 3.154 [210 kB] Fetched 210 kB in 0s (7476 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpohvi7ay2/adduser_3.154_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-packaging all 25.0-2 [56.7 kB] Fetched 56.7 kB in 0s (2772 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9tn1nrvv/python3-packaging_25.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libncurses-dev arm64 6.6+20251231-1 [343 kB] Fetched 343 kB in 0s (16.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwo8f9f9n/libncurses-dev_6.6+20251231-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpcre2-dev arm64 10.46-1 [750 kB] Fetched 750 kB in 0s (40.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyvlxyd84/libpcre2-dev_10.46-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 llvm-21-runtime arm64 1:21.1.8-1+b1 [521 kB] Fetched 521 kB in 0s (22.1 MB/s) dpkg-name: info: moved 'llvm-21-runtime_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmp5et_hid2/llvm-21-runtime_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-mdit-py-plugins all 0.5.0-1 [33.4 kB] Fetched 33.4 kB in 0s (1789 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbwi4mzsp/python3-mdit-py-plugins_0.5.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 perl arm64 5.40.1-7 [267 kB] Fetched 267 kB in 0s (11.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp65bcmxw6/perl_5.40.1-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Fetched 840 kB in 0s (33.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7cw93t9f/fonts-dejavu-core_2.37-8_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libheif-plugin-dav1d arm64 1.20.2-2+b4 [18.1 kB] Fetched 18.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpksb8ixa2/libheif-plugin-dav1d_1.20.2-2+b4_arm64.deb' dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqhj51nut/libngtcp2-16_1.16.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libngtcp2-16 arm64 1.16.0-1 [123 kB] Fetched 123 kB in 0s (5895 kB/s) Get:1 http://deb.debian.org/debian unstable/main arm64 libtext-charwidth-perl arm64 0.04-11+b4 [9652 B] Fetched 9652 B in 0s (477 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppdcswmm1/libtext-charwidth-perl_0.04-11+b4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 coreutils arm64 9.7-3 [2949 kB] Fetched 2949 kB in 0s (73.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp361vdzm9/coreutils_9.7-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-recommonmark all 0.7.1+ds-8 [17.6 kB] Fetched 17.6 kB in 0s (975 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnxig881f/python3-recommonmark_0.7.1+ds-8_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libclang-cpp21 arm64 1:21.1.8-1+b1 [11.7 MB] Fetched 11.7 MB in 0s (92.1 MB/s) dpkg-name: info: moved 'libclang-cpp21_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmp6ah8e6yp/libclang-cpp21_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 postgresql-server-dev-all all 287 [14.8 kB] Fetched 14.8 kB in 0s (718 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgygb18x9/postgresql-server-dev-all_287_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 rpcsvc-proto arm64 1.4.3-1+b1 [60.5 kB] Fetched 60.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa9ypwxl9/rpcsvc-proto_1.4.3-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgmp10 arm64 2:6.3.0+dfsg-5 [535 kB] Fetched 535 kB in 0s (24.2 MB/s) dpkg-name: info: moved 'libgmp10_2%3a6.3.0+dfsg-5_arm64.deb' to '/srv/rebuilderd/tmp/tmpztkeb71s/libgmp10_6.3.0+dfsg-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libzstd1 arm64 1.5.7+dfsg-3 [260 kB] Fetched 260 kB in 0s (12.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplu9ays0p/libzstd1_1.5.7+dfsg-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pandas-lib arm64 2.3.3+dfsg-3 [5472 kB] Fetched 5472 kB in 0s (87.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy_6s046r/python3-pandas-lib_2.3.3+dfsg-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcairo-gobject2 arm64 1.18.4-3 [130 kB] Fetched 130 kB in 0s (6347 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3j8bn8c4/libcairo-gobject2_1.18.4-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtinfo6 arm64 6.6+20251231-1 [346 kB] Fetched 346 kB in 0s (14.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyluxxwsq/libtinfo6_6.6+20251231-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfontenc1 arm64 1:1.1.8-1+b2 [22.5 kB] Fetched 22.5 kB in 0s (1100 kB/s) dpkg-name: info: moved 'libfontenc1_1%3a1.1.8-1+b2_arm64.deb' to '/srv/rebuilderd/tmp/tmp6039emsl/libfontenc1_1.1.8-1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Fetched 69.0 kB in 0s (3116 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphldfl2vp/libuchardet0_0.0.8-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libselinux-dev arm64 3.9-4+b1 [174 kB] Fetched 174 kB in 0s (7692 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplyy2l0b3/libselinux-dev_3.9-4+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-atomic1.83-dev arm64 1.83.0-5+b1 [236 kB] Fetched 236 kB in 0s (10.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz3ogvys9/libboost-atomic1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-thread1.83-dev arm64 1.83.0-5+b1 [279 kB] Fetched 279 kB in 0s (11.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4ym7i7wc/libboost-thread1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Fetched 19.9 kB in 0s (1064 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp81x1jcdi/libfile-stripnondeterminism-perl_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-defusedxml all 0.7.1-3 [43.4 kB] Fetched 43.4 kB in 0s (1580 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvam0mm3y/python3-defusedxml_0.7.1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 util-linux arm64 2.41.3-3 [1123 kB] Fetched 1123 kB in 0s (48.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjdyi7jwk/util-linux_2.41.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-numpy1.83.0 arm64 1.83.0-5+b1 [246 kB] Fetched 246 kB in 0s (10.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmvt3f1ke/libboost-numpy1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 make arm64 4.4.1-3 [453 kB] Fetched 453 kB in 0s (19.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_s8x0wut/make_4.4.1-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsvtav1enc2 arm64 2.3.0+dfsg-1 [1558 kB] Fetched 1558 kB in 0s (41.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpthc8mu6d/libsvtav1enc2_2.3.0+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libclang-common-21-dev arm64 1:21.1.8-1+b1 [799 kB] Fetched 799 kB in 0s (35.2 MB/s) dpkg-name: info: moved 'libclang-common-21-dev_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmpi_h3totr/libclang-common-21-dev_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 girepository-tools arm64 2.86.3-4 [140 kB] Fetched 140 kB in 0s (7600 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp613azk91/girepository-tools_2.86.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libstdc++6 arm64 15.2.0-12 [648 kB] Fetched 648 kB in 0s (29.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpux41mkaa/libstdc++6_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Fetched 71.7 kB in 0s (3490 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe0qs8vew/libnghttp2-14_1.64.0-1.1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Fetched 72.4 kB in 0s (3240 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbankuf4a/python3-requests_2.32.5+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 cpp-15 arm64 15.2.0-12 [1276 B] Fetched 1276 B in 0s (63.3 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpga6vt5n7/cpp-15_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libice-dev arm64 2:1.1.1-1 [73.0 kB] Fetched 73.0 kB in 0s (3963 kB/s) dpkg-name: info: moved 'libice-dev_2%3a1.1.1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpl6l3o08d/libice-dev_1.1.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libteckit0 arm64 2.5.13+ds-1 [331 kB] Fetched 331 kB in 0s (15.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi9806ba1/libteckit0_2.5.13+ds-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 login.defs all 1:4.19.0-4 [211 kB] Fetched 211 kB in 0s (9547 kB/s) dpkg-name: info: moved 'login.defs_1%3a4.19.0-4_all.deb' to '/srv/rebuilderd/tmp/tmptwf08ajb/login.defs_4.19.0-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libyuv0 arm64 0.0.1922.20260106-1 [137 kB] Fetched 137 kB in 0s (6055 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt281qech/libyuv0_0.0.1922.20260106-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc-dev-bin arm64 2.42-7 [59.8 kB] Fetched 59.8 kB in 0s (2211 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_dxc72ql/libc-dev-bin_2.42-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 perl-modules-5.40 all 5.40.1-7 [3012 kB] Fetched 3012 kB in 0s (80.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnf7z9cyd/perl-modules-5.40_5.40.1-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libabsl20240722 arm64 20240722.0-4 [452 kB] Fetched 452 kB in 0s (21.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwcke_p4v/libabsl20240722_20240722.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcoordgen-dev arm64 3.0.2-3 [46.7 kB] Fetched 46.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcli2a239/libcoordgen-dev_3.0.2-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 rapidjson-dev all 1.1.0+dfsg2-7.6 [98.2 kB] Fetched 98.2 kB in 0s (5985 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptuewdvvt/rapidjson-dev_1.1.0+dfsg2-7.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcommons-logging-java all 1.3.0-2 [68.6 kB] Fetched 68.6 kB in 0s (2801 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa7a73xc6/libcommons-logging-java_1.3.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 tex-common all 6.20 [29.7 kB] Fetched 29.7 kB in 0s (1445 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg354jh4y/tex-common_6.20_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpdfbox-java all 1:1.8.16-5 [5527 kB] Fetched 5527 kB in 0s (81.3 MB/s) dpkg-name: info: moved 'libpdfbox-java_1%3a1.8.16-5_all.deb' to '/srv/rebuilderd/tmp/tmpx0iqp67a/libpdfbox-java_1.8.16-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmd0 arm64 1.1.0-2+b1 [33.7 kB] Fetched 33.7 kB in 0s (1676 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7m7kqdqg/libmd0_1.1.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libllvm21 arm64 1:21.1.8-1+b1 [25.4 MB] Fetched 25.4 MB in 0s (112 MB/s) dpkg-name: info: moved 'libllvm21_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmpzrbv61jd/libllvm21_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libjs-sphinxdoc all 8.2.3-12 [27.9 kB] Fetched 27.9 kB in 0s (1429 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9ysm2so2/libjs-sphinxdoc_8.2.3-12_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.29 [943 kB] Fetched 943 kB in 0s (38.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfpjo9j9q/debhelper_13.29_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmpfi0 arm64 1.5.4+ds-4 [34.5 kB] Fetched 34.5 kB in 0s (1651 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5m_iwo7s/libmpfi0_1.5.4+ds-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmpfr6 arm64 4.2.2-2 [685 kB] Fetched 685 kB in 0s (39.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy6f5ys5v/libmpfr6_4.2.2-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgprofng0 arm64 2.45.50.20251209-1 [679 kB] Fetched 679 kB in 0s (28.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3zno_f_x/libgprofng0_2.45.50.20251209-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Fetched 20.6 kB in 0s (1039 kB/s) dpkg-name: info: moved 'libxau6_1%3a1.0.11-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpz6z40esi/libxau6_1.0.11-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.3-3 [74.8 kB] Fetched 74.8 kB in 0s (3511 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp69sf9mdk/readline-common_8.3-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-sqlalchemy all 2.0.45+ds1-1 [1232 kB] Fetched 1232 kB in 5s (233 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxnqq2pau/python3-sqlalchemy_2.0.45+ds1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 hostname arm64 3.25 [10.8 kB] Fetched 10.8 kB in 0s (534 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1s667tu8/hostname_3.25_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libraqm0 arm64 0.10.3-1 [13.6 kB] Fetched 13.6 kB in 0s (688 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8_83dsc1/libraqm0_0.10.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpangoft2-1.0-0 arm64 1.57.0-1 [54.5 kB] Fetched 54.5 kB in 0s (3352 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppjaz5_eg/libpangoft2-1.0-0_1.57.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfmt10 arm64 10.1.1+ds1-4 [121 kB] Fetched 121 kB in 0s (5524 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwn4p0l5q/libfmt10_10.1.1+ds1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libacl1 arm64 2.3.2-2+b1 [32.2 kB] Fetched 32.2 kB in 0s (1524 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt7yq3c_w/libacl1_2.3.2-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libraw23t64 arm64 0.21.5b-1 [389 kB] Fetched 389 kB in 0s (19.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzz26qy6_/libraw23t64_0.21.5b-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 librhash1 arm64 1.4.6-1.1 [128 kB] Fetched 128 kB in 0s (6341 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv4hd_wnz/librhash1_1.4.6-1.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-program-options1.83-dev arm64 1.83.0-5+b1 [373 kB] Fetched 373 kB in 0s (17.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphkyr518t/libboost-program-options1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 sed arm64 4.9-2+b1 [326 kB] Fetched 326 kB in 0s (14.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvzqsf9dr/sed_4.9-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libeigen3-dev all 3.4.0-5 [1034 kB] Fetched 1034 kB in 0s (36.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5q8a64wr/libeigen3-dev_3.4.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcap2 arm64 1:2.75-10+b5 [28.2 kB] Fetched 28.2 kB in 0s (1251 kB/s) dpkg-name: info: moved 'libcap2_1%3a2.75-10+b5_arm64.deb' to '/srv/rebuilderd/tmp/tmpyzm634v6/libcap2_2.75-10+b5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 pandoc-data all 3.1.11.1-3 [459 kB] Fetched 459 kB in 0s (18.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9kgqnd0u/pandoc-data_3.1.11.1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Fetched 169 kB in 0s (7985 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdrsw8ue8/libreadline8t64_8.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 librsvg2-bin arm64 2.61.3+dfsg-3 [1757 kB] Fetched 1757 kB in 0s (72.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppyx5h2vy/librsvg2-bin_2.61.3+dfsg-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-9 [540 kB] Fetched 540 kB in 0s (26.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuufmc6jt/libtool_2.5.4-9_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-imagesize all 1.4.1-1 [6688 B] Fetched 6688 B in 0s (318 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvhrt5vgw/python3-imagesize_1.4.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpam-modules arm64 1.7.0-5 [172 kB] Fetched 172 kB in 0s (7898 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfskea298/libpam-modules_1.7.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 t1utils arm64 1.41-4+b1 [57.6 kB] Fetched 57.6 kB in 0s (2125 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpikopsej5/t1utils_1.41-4+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxxhash0 arm64 0.8.3-2 [22.3 kB] Fetched 22.3 kB in 0s (1224 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpve95rg93/libxxhash0_0.8.3-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcap-ng0 arm64 0.8.5-4+b2 [17.0 kB] Fetched 17.0 kB in 0s (867 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbh9oy_9m/libcap-ng0_0.8.5-4+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmpc3 arm64 1.3.1-2 [50.2 kB] Fetched 50.2 kB in 0s (1919 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6_2cggea/libmpc3_1.3.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdpkg-perl all 1.23.3 [657 kB] Fetched 657 kB in 0s (28.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoylznwgr/libdpkg-perl_1.23.3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Fetched 47.3 kB in 0s (2318 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz58zyci_/libtasn1-6_4.20.0-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsystemd0 arm64 259-1 [430 kB] Fetched 430 kB in 0s (21.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprgfslv2w/libsystemd0_259-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-roman-numerals all 4.1.0-1 [9196 B] Fetched 9196 B in 0s (441 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1lqrqf98/python3-roman-numerals_4.1.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 librav1e0.8 arm64 0.8.1-7 [687 kB] Fetched 687 kB in 0s (30.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp40loysw0/librav1e0.8_0.8.1-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-idna all 3.10-1 [42.0 kB] Fetched 42.0 kB in 0s (1913 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkrp4a9jc/python3-idna_3.10-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libarchive13t64 arm64 3.8.5-1 [329 kB] Fetched 329 kB in 0s (15.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppg0jxx8a/libarchive13t64_3.8.5-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 xtrans-dev all 1.6.0-1 [93.5 kB] Fetched 93.5 kB in 0s (4364 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmqjvid9q/xtrans-dev_1.6.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 icu-devtools arm64 76.1-4 [200 kB] Fetched 200 kB in 0s (9576 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph65mq741/icu-devtools_76.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Fetched 27.9 kB in 0s (1309 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpziq50y6o/python3-alabaster_0.7.16-0.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Fetched 105 kB in 0s (4718 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0l7gol82/libxcb-shm0_1.17.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025c-3 [263 kB] Fetched 263 kB in 0s (15.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsvgmhxy_/tzdata_2025c-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dash arm64 0.5.12-12 [95.6 kB] Fetched 95.6 kB in 0s (4669 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6f80o0an/dash_0.5.12-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 grep arm64 3.12-1 [440 kB] Fetched 440 kB in 0s (20.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxsqqn72f/grep_3.12-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libaudit1 arm64 1:4.1.2-1+b1 [59.7 kB] Fetched 59.7 kB in 0s (2959 kB/s) dpkg-name: info: moved 'libaudit1_1%3a4.1.2-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmpcv3q9yoo/libaudit1_4.1.2-1+b1_arm64.deb' Downloading dependency 1 of 505: libcrypt1:arm64=1:4.5.1-1 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Downloading dependency 32 of 505: python3-packaging:arm64=25.0-2 Downloading dependency 33 of 505: libncurses-dev:arm64=6.6+20251231-1 Downloading dependency 34 of 505: libpcre2-dev:arm64=10.46-1 Downloading dependency 35 of 505: llvm-21-runtime:arm64=1:21.1.8-1+b1 Downloading dependency 36 of 505: python3-mdit-py-plugins:arm64=0.5.0-1 Downloading dependency 37 of 505: perl:arm64=5.40.1-7 Downloading dependency 38 of 505: fonts-dejavu-core:arm64=2.37-8 Downloading dependency 39 of 505: libheif-plugin-dav1d:arm64=1.20.2-2+b4 Downloading dependency 40 of 505: libngtcp2-16:arm64=1.16.0-1 Downloading dependency 41 of 505: libtext-charwidth-perl:arm64=0.04-11+b4 Downloading dependency 42 of 505: coreutils:arm64=9.7-3 Downloading dependency 43 of 505: python3-recommonmark:arm64=0.7.1+ds-8 Downloading dependency 44 of 505: libclang-cpp21:arm64=1:21.1.8-1+b1 Downloading dependency 45 of 505: postgresql-server-dev-all:arm64=287 Downloading dependency 46 of 505: rpcsvc-proto:arm64=1.4.3-1+b1 Downloading dependency 47 of 505: libgmp10:arm64=2:6.3.0+dfsg-5 Downloading dependency 48 of 505: libzstd1:arm64=1.5.7+dfsg-3 Downloading dependency 49 of 505: python3-pandas-lib:arm64=2.3.3+dfsg-3 Downloading dependency 50 of 505: libcairo-gobject2:arm64=1.18.4-3 Downloading dependency 51 of 505: libtinfo6:arm64=6.6+20251231-1 Downloading dependency 52 of 505: libfontenc1:arm64=1:1.1.8-1+b2 Downloading dependency 53 of 505: libuchardet0:arm64=0.0.8-2 Downloading dependency 54 of 505: libselinux-dev:arm64=3.9-4+b1 Downloading dependency 55 of 505: libboost-atomic1.83-dev:arm64=1.83.0-5+b1 Downloading dependency 56 of 505: libboost-thread1.83-dev:arm64=1.83.0-5+b1 Downloading dependency 57 of 505: libfile-stripnondeterminism-perl:arm64=1.15.0-1 Downloading dependency 58 of 505: python3-defusedxml:arm64=0.7.1-3 Downloading dependency 59 of 505: util-linux:arm64=2.41.3-3 Downloading dependency 60 of 505: libboost-numpy1.83.0:arm64=1.83.0-5+b1 Downloading dependency 61 of 505: 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505: libraqm0:arm64=0.10.3-1 Downloading dependency 93 of 505: libpangoft2-1.0-0:arm64=1.57.0-1 Downloading dependency 94 of 505: libfmt10:arm64=10.1.1+ds1-4 Downloading dependency 95 of 505: libacl1:arm64=2.3.2-2+b1 Downloading dependency 96 of 505: libraw23t64:arm64=0.21.5b-1 Downloading dependency 97 of 505: librhash1:arm64=1.4.6-1.1 Downloading dependency 98 of 505: libboost-program-options1.83-dev:arm64=1.83.0-5+b1 Downloading dependency 99 of 505: sed:arm64=4.9-2+b1 Downloading dependency 100 of 505: libeigen3-dev:arm64=3.4.0-5 Downloading dependency 101 of 505: libcap2:arm64=1:2.75-10+b5 Downloading dependency 102 of 505: pandoc-data:arm64=3.1.11.1-3 Downloading dependency 103 of 505: libreadline8t64:arm64=8.3-3 Downloading dependency 104 of 505: librsvg2-bin:arm64=2.61.3+dfsg-3 Downloading dependency 105 of 505: libtool:arm64=2.5.4-9 Downloading dependency 106 of 505: python3-imagesize:arm64=1.4.1-1 Downloading dependency 107 of 505: libpam-modules:arm64=1.7.0-5 Downloading dependency 108 of 505: t1utils:arm64=1.41-4+b1 Downloading dependency 109 of 505: libxxhash0:arm64=0.8.3-2 Downloading dependency 110 of 505: libcap-ng0:arm64=0.8.5-4+b2 Downloading dependency 111 of 505: libmpc3:arm64=1.3.1-2 Downloading dependency 112 of 505: libdpkg-perl:arm64=1.23.3 Downloading dependency 113 of 505: libtasn1-6:arm64=4.20.0-2 Downloading dependency 114 of 505: libsystemd0:arm64=259-1 Downloading dependency 115 of 505: python3-roman-numerals:arm64=4.1.0-1 Downloading dependency 116 of 505: librav1e0.8:arm64=0.8.1-7 Downloading dependency 117 of 505: python3-idna:arm64=3.10-1 Downloading dependency 118 of 505: libarchive13t64:arm64=3.8.5-1 Downloading dependency 119 of 505: xtrans-dev:arm64=1.6.0-1 Downloading dependency 120 of 505: icu-devtools:arm64=76.1-4 Downloading dependency 121 of 505: python3-alabaster:arm64=0.7.16-0.1 Downloading dependency 122 of 505: libxcb-shm0:arm64=1.17.0-2+b1 Downloading dependency 123 of 505: tzdata:arm64=2025c-3 Downloading dependency 124 of 505: dash:arm64=0.5.12-12 Downloading dependency 125 of 505: grep:arm64=3.12-1 Downloading dependency 126 of 505: libaudit1:arm64=1:4.1.2-1+b1 Downloading dependency 127 of 505: libgio-2.0-dev-bin:arm64=2.86.3-4Get:1 http://deb.debian.org/debian unstable/main arm64 libgio-2.0-dev-bin arm64 2.86.3-4 [168 kB] Fetched 168 kB in 0s (8100 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnhx80oxy/libgio-2.0-dev-bin_2.86.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-numpy-dev arm64 1.83.0.2+b2 [3632 B] Fetched 3632 B in 0s (180 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsdc9meaa/libboost-numpy-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libobjc4 arm64 15.2.0-12 [39.7 kB] Fetched 39.7 kB in 0s (1187 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppvbjbrht/libobjc4_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Fetched 60.2 kB in 0s (2700 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy274l5yq/autotools-dev_20240727.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 llvm-21-dev arm64 1:21.1.8-1+b1 [44.6 MB] Fetched 44.6 MB in 0s (147 MB/s) dpkg-name: info: moved 'llvm-21-dev_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmphn9n42c5/llvm-21-dev_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsqlite3-0 arm64 3.46.1-8 [884 kB] Fetched 884 kB in 0s (34.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp20bl91bo/libsqlite3-0_3.46.1-8_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 doxygen arm64 1.15.0+ds1-1+b1 [4934 kB] Fetched 4934 kB in 0s (81.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6oz_nnb4/doxygen_1.15.0+ds1-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Fetched 489 kB in 0s (20.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaqycy8iz/fonts-dejavu-mono_2.37-8_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 mawk arm64 1.3.4.20250131-2 [133 kB] Fetched 133 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp295vauug/mawk_1.3.4.20250131-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.5.4-1 [1457 kB] Fetched 1457 kB in 0s (79.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5dxpuq7i/openssl_3.5.4-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Fetched 42.4 kB in 0s (1995 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpefeu60c5/libdeflate0_1.23-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpcre2-posix3 arm64 10.46-1 [64.1 kB] Fetched 64.1 kB in 0s (3150 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp51m1pw9i/libpcre2-posix3_10.46-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 zlib1g arm64 1:1.3.dfsg+really1.3.1-1+b2 [85.9 kB] Fetched 85.9 kB in 0s (3845 kB/s) dpkg-name: info: moved 'zlib1g_1%3a1.3.dfsg+really1.3.1-1+b2_arm64.deb' to '/srv/rebuilderd/tmp/tmpw1th681w/zlib1g_1.3.dfsg+really1.3.1-1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-program-options1.83.0 arm64 1.83.0-5+b1 [336 kB] Fetched 336 kB in 0s (15.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3_ooecm3/libboost-program-options1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libzzip-0-13t64 arm64 0.13.78+dfsg.1-0.2 [59.4 kB] Fetched 59.4 kB in 0s (2775 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnzy2zrxl/libzzip-0-13t64_0.13.78+dfsg.1-0.2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-ossl0 arm64 1.16.0-1 [25.7 kB] Fetched 25.7 kB in 0s (1410 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptp3w1vtj/libngtcp2-crypto-ossl0_1.16.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.11-3 [1400 kB] Fetched 1400 kB in 0s (56.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9a97ecq9/libgnutls30t64_3.8.11-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdatrie1 arm64 0.2.14-1 [38.9 kB] Fetched 38.9 kB in 0s (1948 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphi8xr675/libdatrie1_0.2.14-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-mdurl all 0.1.2-1 [9444 B] Fetched 9444 B in 0s (475 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw9dgp8ys/python3-mdurl_0.1.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmount1 arm64 2.41.3-3 [199 kB] Fetched 199 kB in 0s (9515 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppwlaj6zw/libmount1_2.41.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmagickcore-7.q16-10 arm64 8:7.1.2.12+dfsg1-1 [1625 kB] Fetched 1625 kB in 0s (56.1 MB/s) dpkg-name: info: moved 'libmagickcore-7.q16-10_8%3a7.1.2.12+dfsg1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpli1s84zj/libmagickcore-7.q16-10_7.1.2.12+dfsg1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 media-types all 14.0.0 [30.8 kB] Fetched 30.8 kB in 0s (1546 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaxj97dna/media-types_14.0.0_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Fetched 57.1 kB in 0s (2756 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp817mvbdh/libpsl5t64_0.21.2-1.1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libjansson4 arm64 2.14-2+b4 [38.9 kB] Fetched 38.9 kB in 0s (1918 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp71jl9sen/libjansson4_2.14-2+b4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libde265-0 arm64 1.0.16-1+b1 [155 kB] Fetched 155 kB in 0s (7337 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplx3a08wq/libde265-0_1.0.16-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsemanage2 arm64 3.9-1+b1 [87.3 kB] Fetched 87.3 kB in 0s (4141 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph883gsls/libsemanage2_3.9-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 postgresql-client-common all 287 [47.9 kB] Fetched 47.9 kB in 0s (2723 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmb6il2jx/postgresql-client-common_287_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgav1-2 arm64 0.20.0-2 [469 kB] Fetched 469 kB in 0s (19.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxqx3wqlp/libgav1-2_0.20.0-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Fetched 114 kB in 0s (5176 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphuv44pnv/libsharpyuv0_1.5.0-0.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsm6 arm64 2:1.2.6-1 [36.4 kB] Fetched 36.4 kB in 0s (1823 kB/s) dpkg-name: info: moved 'libsm6_2%3a1.2.6-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp9usd7sqi/libsm6_1.2.6-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-program-options-dev arm64 1.83.0.2+b2 [3600 B] Fetched 3600 B in 0s (168 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmponj_x0il/libboost-program-options-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmaeparser1 arm64 1.3.3-3 [83.7 kB] Fetched 83.7 kB in 0s (3986 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6h2_qnxq/libmaeparser1_1.3.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libssl-dev arm64 3.5.4-1 [3377 kB] Fetched 3377 kB in 0s (68.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptn0anj8j/libssl-dev_3.5.4-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libthai0 arm64 0.1.30-1 [51.1 kB] Fetched 51.1 kB in 0s (2306 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1xr930e0/libthai0_0.1.30-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-snowballstemmer all 3.0.1-1 [63.5 kB] Fetched 63.5 kB in 0s (2841 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoae5q01_/python3-snowballstemmer_3.0.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 imagemagick-7.q16 arm64 8:7.1.2.12+dfsg1-1 [729 kB] Fetched 729 kB in 0s (31.0 MB/s) dpkg-name: info: moved 'imagemagick-7.q16_8%3a7.1.2.12+dfsg1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpfo9szl3k/imagemagick-7.q16_7.1.2.12+dfsg1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 base-passwd arm64 3.6.8 [54.0 kB] Fetched 54.0 kB in 0s (2646 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmzds53aj/base-passwd_3.6.8_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libipc-run-perl all 20250809.0-1 [104 kB] Fetched 104 kB in 0s (5105 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8lxpe3ur/libipc-run-perl_20250809.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-7 [1846 kB] Fetched 1846 kB in 0s (59.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp70odqddc/liblapack3_3.12.1-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgio-2.0-dev arm64 2.86.3-4 [1701 kB] Fetched 1701 kB in 0s (60.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8638_gca/libgio-2.0-dev_2.86.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.11-1+b1 [2060 kB] Fetched 2060 kB in 0s (66.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqkv48z4a/python3.13-minimal_3.13.11-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 gcc-15 arm64 15.2.0-12 [519 kB] Fetched 519 kB in 0s (23.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpapom53is/gcc-15_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libattr1 arm64 1:2.5.2-3 [22.7 kB] Fetched 22.7 kB in 0s (1415 kB/s) dpkg-name: info: moved 'libattr1_1%3a2.5.2-3_arm64.deb' to '/srv/rebuilderd/tmp/tmpjqd_lbdc/libattr1_2.5.2-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.2-1 [1613 kB] Fetched 1613 kB in 0s (38.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdcg3_76c/gettext_0.23.2-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-regex1.83-dev arm64 1.83.0-5+b1 [340 kB] Fetched 340 kB in 0s (14.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpak36ijje/libboost-regex1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 imagemagick arm64 8:7.1.2.12+dfsg1-1 [22.4 kB] Fetched 22.4 kB in 0s (1213 kB/s) dpkg-name: info: moved 'imagemagick_8%3a7.1.2.12+dfsg1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpj540mjj5/imagemagick_7.1.2.12+dfsg1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pandas all 2.3.3+dfsg-3 [2935 kB] Fetched 2935 kB in 0s (66.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvocx8xyz/python3-pandas_2.3.3+dfsg-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 sphinx-common all 8.2.3-12 [619 kB] Fetched 619 kB in 0s (25.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzkvhjy1f/sphinx-common_8.2.3-12_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxpm4 arm64 1:3.5.17-1+b3 [53.4 kB] Fetched 53.4 kB in 0s (2424 kB/s) dpkg-name: info: moved 'libxpm4_1%3a3.5.17-1+b3_arm64.deb' to '/srv/rebuilderd/tmp/tmp7rmjspj9/libxpm4_3.5.17-1+b3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libjson-perl all 4.10000-1 [87.5 kB] Fetched 87.5 kB in 0s (3889 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwx_vpg89/libjson-perl_4.10000-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.17.1-3 [124 kB] Fetched 124 kB in 0s (6175 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw_stu2rh/libfontconfig1_2.17.1-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmount-dev arm64 2.41.3-3 [31.9 kB] Fetched 31.9 kB in 0s (1606 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa5w4k9f5/libmount-dev_2.41.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libbinutils arm64 2.45.50.20251209-1 [670 kB] Fetched 670 kB in 0s (27.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppmu9of1r/libbinutils_2.45.50.20251209-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.22.1-2 [315 kB] Fetched 315 kB in 0s (11.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptttxt73i/libkrb5-3_1.22.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Fetched 577 kB in 0s (26.2 MB/s) dpkg-name: info: moved 'xfonts-encodings_1%3a1.0.4-2.2_all.deb' to '/srv/rebuilderd/tmp/tmpwoe_5rh2/xfonts-encodings_1.0.4-2.2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libseccomp2 arm64 2.6.0-2+b1 [50.9 kB] Fetched 50.9 kB in 0s (2406 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvblxnxyd/libseccomp2_2.6.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-iostreams-dev arm64 1.83.0.2+b2 [3568 B] Fetched 3568 B in 0s (180 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe_f4toys/libboost-iostreams-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libedit2 arm64 3.1-20251016-1 [88.7 kB] Fetched 88.7 kB in 0s (4583 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpksmapeph/libedit2_3.1-20251016-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Fetched 146 kB in 0s (6329 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqty15pro/liblerc4_4.0.0+ds-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc6 arm64 2.42-7 [1462 kB] Fetched 1462 kB in 0s (51.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnt550or5/libc6_2.42-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc-bin arm64 2.42-7 [574 kB] Fetched 574 kB in 0s (23.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbjd8dgfs/libc-bin_2.42-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 xml-core all 0.19 [20.1 kB] Fetched 20.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx30vgwfg/xml-core_0.19_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpcre2-16-0 arm64 10.46-1 [247 kB] Fetched 247 kB in 0s (10.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpop9v2jl9/libpcre2-16-0_10.46-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libffi-dev arm64 3.5.2-3 [60.1 kB] Fetched 60.1 kB in 0s (2723 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2t4z8ame/libffi-dev_3.5.2-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.26 [27.0 kB] Fetched 27.0 kB in 0s (1229 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa8leqnfc/sensible-utils_0.0.26_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.86.3-4 [1437 kB] Fetched 1437 kB in 0s (50.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfj909e1b/libglib2.0-0t64_2.86.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Fetched 343 kB in 0s (0 B/s) dpkg-name: info: moved 'libx11-data_2%3a1.8.12-1_all.deb' to '/srv/rebuilderd/tmp/tmprqge66tf/libx11-data_1.8.12-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 patch arm64 2.8-2 [128 kB] Fetched 128 kB in 0s (6260 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp92m7tnzp/patch_2.8-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 llvm-21-tools arm64 1:21.1.8-1+b1 [535 kB] Fetched 535 kB in 0s (22.0 MB/s) dpkg-name: info: moved 'llvm-21-tools_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmpxq2j9rgi/llvm-21-tools_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 netbase all 6.5 [12.4 kB] Fetched 12.4 kB in 0s (674 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwv99trsb/netbase_6.5_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 llvm-21 arm64 1:21.1.8-1+b1 [16.9 MB] Fetched 16.9 MB in 0s (91.5 MB/s) dpkg-name: info: moved 'llvm-21_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmpf25em7cl/llvm-21_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-date-time1.83.0 arm64 1.83.0-5+b1 [231 kB] Fetched 231 kB in 0s (7951 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmusf5xsq/libboost-date-time1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-dev arm64 3.13.9-3 [26.0 kB] Fetched 26.0 kB in 0s (1291 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx633d_6g/python3-dev_3.13.9-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libptexenc1 arm64 2025.20250727.75242+ds-5 [53.0 kB] Fetched 53.0 kB in 0s (1790 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6jtg8_19/libptexenc1_2025.20250727.75242+ds-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc6-dev arm64 2.42-7 [1695 kB] Fetched 1695 kB in 0s (38.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdcymq6iz/libc6-dev_2.42-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 sysvinit-utils arm64 3.15-6 [34.9 kB] Fetched 34.9 kB in 0s (1743 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcqb376_r/sysvinit-utils_3.15-6_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Fetched 108 kB in 0s (5966 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpylyw5dno/libidn2-0_2.3.8-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpaper-utils arm64 2.2.5-0.3+b3 [16.3 kB] Fetched 16.3 kB in 0s (1381 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpks4di546/libpaper-utils_2.2.5-0.3+b3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxapian30 arm64 1.4.29-3 [1056 kB] Fetched 1056 kB in 0s (34.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp17glit8l/libxapian30_1.4.29-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-10 [19.8 kB] Fetched 19.8 kB in 0s (955 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbfjifeun/libsasl2-modules-db_2.1.28+dfsg1-10_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.17.1-3 [54.8 kB] Fetched 54.8 kB in 0s (2558 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjmjhij5y/fontconfig-config_2.17.1-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libz3-dev arm64 4.13.3-1 [107 kB] Fetched 107 kB in 0s (4673 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_e12wzx8/libz3-dev_4.13.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.15.0-2 [92.5 kB] Fetched 92.5 kB in 0s (4142 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjf0uj8_d/python3-typing-extensions_4.15.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 linux-libc-dev all 6.18.3-1 [2548 kB] Fetched 2548 kB in 0s (73.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfv8134ye/linux-libc-dev_6.18.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxcb-render0-dev arm64 1.17.0-2+b1 [119 kB] Fetched 119 kB in 0s (5280 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp524smwux/libxcb-render0-dev_1.17.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.9-3 [27.6 kB] Fetched 27.6 kB in 0s (1387 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxfi6pgb1/python3_3.13.9-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdebconfclient0 arm64 0.282+b2 [11.3 kB] Fetched 11.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm8jmc3bb/libdebconfclient0_0.282+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libaudit-common all 1:4.1.2-1 [14.3 kB] Fetched 14.3 kB in 0s (789 kB/s) dpkg-name: info: moved 'libaudit-common_1%3a4.1.2-1_all.deb' to '/srv/rebuilderd/tmp/tmp_nq2f6h1/libaudit-common_4.1.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 build-essential arm64 12.12 [4624 B] Fetched 4624 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp65ymznd6/build-essential_12.12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-7 [135 kB] Fetched 135 kB in 0s (6171 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfxag6rx5/libblas3_3.12.1-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-serialization1.83-dev arm64 1.83.0-5+b1 [391 kB] Fetched 391 kB in 0s (17.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjbhgf53n/libboost-serialization1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 x11proto-dev all 2024.1-1 [603 kB] Fetched 603 kB in 0s (28.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaawsjzoz/x11proto-dev_2024.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 15.2.0-12 [372 kB] Fetched 372 kB in 0s (17.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps76_7xob/libgfortran5_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-pictures all 2025.20251127-1 [23.5 MB] Fetched 23.5 MB in 0s (96.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpazkmj32a/texlive-pictures_2025.20251127-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Fetched 179 kB in 0s (8000 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsbk6u_mr/libldap2_2.6.10+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libobjc-15-dev arm64 15.2.0-12 [166 kB] Fetched 166 kB in 0s (7179 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuix80ffm/libobjc-15-dev_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 xdg-utils all 1.2.1-2 [75.8 kB] Fetched 75.8 kB in 0s (3594 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi9a_9urd/xdg-utils_1.2.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B] Fetched 3828 B in 0s (171 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjy8cifhw/libboost-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libavif16 arm64 1.3.0-1+b2 [126 kB] Fetched 126 kB in 0s (5637 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpggtydlfu/libavif16_1.3.0-1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pygments all 2.19.2+dfsg-1 [847 kB] Fetched 847 kB in 0s (35.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpznttr64e/python3-pygments_2.19.2+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-luatex all 2025.20251127-1 [36.3 MB] Fetched 36.3 MB in 0s (101 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpitifsr2e/texlive-luatex_2025.20251127-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 cpp-15-aarch64-linux-gnu arm64 15.2.0-12 [10.1 MB] Fetched 10.1 MB in 0s (119 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpevvjpebq/cpp-15-aarch64-linux-gnu_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfontconfig-dev arm64 2.17.1-3 [148 kB] Fetched 148 kB in 0s (7645 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8ulpxlcd/libfontconfig-dev_2.17.1-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc-gconv-modules-extra arm64 2.42-7 [1158 kB] Fetched 1158 kB in 0s (44.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbcb_1k1c/libc-gconv-modules-extra_2.42-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblqr-1-0 arm64 0.4.2-2.2 [27.2 kB] Fetched 27.2 kB in 0s (1293 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7wwqehm9/liblqr-1-0_0.4.2-2.2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pytz all 2025.2-5 [31.8 kB] Fetched 31.8 kB in 0s (1515 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpom9lmghp/python3-pytz_2025.2-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 findutils arm64 4.10.0-3 [696 kB] Fetched 696 kB in 0s (30.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp7yduxlb/findutils_4.10.0-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 tex-gyre all 20180621-7 [6209 kB] Fetched 6209 kB in 0s (90.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpff9f_wb1/tex-gyre_20180621-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.22 [216 kB] Fetched 216 kB in 0s (10.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph3ly2uxn/po-debconf_1.0.22_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ssl-cert all 1.1.3 [16.8 kB] Fetched 16.8 kB in 0s (800 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuf3w0tm2/ssl-cert_1.1.3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Fetched 143 kB in 0s (6918 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvyg5r1it/libxcb1_1.17.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dh-python all 7.20251231 [119 kB] Fetched 119 kB in 0s (5635 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqr_e8tza/dh-python_7.20251231_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libasan8 arm64 15.2.0-12 [2601 kB] Fetched 2601 kB in 0s (84.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx0fujjix/libasan8_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Fetched 453 kB in 0s (20.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6gf2bfpr/libunistring5_1.3-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxmu6 arm64 2:1.1.3-4 [55.0 kB] Fetched 55.0 kB in 0s (2719 kB/s) dpkg-name: info: moved 'libxmu6_2%3a1.1.3-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpmqgkq_zz/libxmu6_1.1.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Fetched 56.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpku6w9ktf/librtmp1_2.4+20151223.gitfa8646d.1-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-docutils all 0.22.4+dfsg-1 [433 kB] Fetched 433 kB in 0s (18.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg9hq_ce2/python3-docutils_0.22.4+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.194-1 [184 kB] Fetched 184 kB in 0s (9854 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoa9_tkdt/libelf1t64_0.194-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB] Fetched 89.3 kB in 0s (4249 kB/s) dpkg-name: info: moved 'xfonts-utils_1%3a7.7+7_arm64.deb' to '/srv/rebuilderd/tmp/tmp4i_cdts9/xfonts-utils_7.7+7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libglib2.0-dev-bin arm64 2.86.3-4 [57.3 kB] Fetched 57.3 kB in 0s (2714 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp9y3pv_j/libglib2.0-dev-bin_2.86.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsynctex2 arm64 2025.20250727.75242+ds-5 [61.6 kB] Fetched 61.6 kB in 0s (2905 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj828ewgp/libsynctex2_2025.20250727.75242+ds-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0-dev arm64 1.17.0-2+b1 [108 kB] Fetched 108 kB in 0s (5148 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0u1pkj5v/libxcb-shm0-dev_1.17.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libncursesw6 arm64 6.6+20251231-1 [125 kB] Fetched 125 kB in 0s (5634 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd7d_k67u/libncursesw6_6.6+20251231-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-chrono1.83-dev arm64 1.83.0-5+b1 [246 kB] Fetched 246 kB in 0s (9436 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsvgvt4hs/libboost-chrono1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 uuid-dev arm64 2.41.3-3 [50.3 kB] Fetched 50.3 kB in 0s (2715 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_s97azqm/uuid-dev_2.41.3-3_arm64.deb' Downloading dependency 128 of 505: libboost-numpy-dev:arm64=1.83.0.2+b2 Downloading dependency 129 of 505: libobjc4:arm64=15.2.0-12 Downloading dependency 130 of 505: autotools-dev:arm64=20240727.1 Downloading dependency 131 of 505: llvm-21-dev:arm64=1:21.1.8-1+b1 Downloading dependency 132 of 505: libsqlite3-0:arm64=3.46.1-8 Downloading dependency 133 of 505: doxygen:arm64=1.15.0+ds1-1+b1 Downloading dependency 134 of 505: fonts-dejavu-mono:arm64=2.37-8 Downloading dependency 135 of 505: mawk:arm64=1.3.4.20250131-2 Downloading dependency 136 of 505: openssl:arm64=3.5.4-1 Downloading dependency 137 of 505: libdeflate0:arm64=1.23-2 Downloading dependency 138 of 505: libpcre2-posix3:arm64=10.46-1 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229 of 505: libfontconfig-dev:arm64=2.17.1-3 Downloading dependency 230 of 505: libc-gconv-modules-extra:arm64=2.42-7 Downloading dependency 231 of 505: liblqr-1-0:arm64=0.4.2-2.2 Downloading dependency 232 of 505: python3-pytz:arm64=2025.2-5 Downloading dependency 233 of 505: findutils:arm64=4.10.0-3 Downloading dependency 234 of 505: tex-gyre:arm64=20180621-7 Downloading dependency 235 of 505: po-debconf:arm64=1.0.22 Downloading dependency 236 of 505: ssl-cert:arm64=1.1.3 Downloading dependency 237 of 505: libxcb1:arm64=1.17.0-2+b1 Downloading dependency 238 of 505: dh-python:arm64=7.20251231 Downloading dependency 239 of 505: libasan8:arm64=15.2.0-12 Downloading dependency 240 of 505: libunistring5:arm64=1.3-2 Downloading dependency 241 of 505: libxmu6:arm64=2:1.1.3-4 Downloading dependency 242 of 505: librtmp1:arm64=2.4+20151223.gitfa8646d.1-3 Downloading dependency 243 of 505: python3-docutils:arm64=0.22.4+dfsg-1 Downloading dependency 244 of 505: libelf1t64:arm64=0.194-1 Downloading dependency 245 of 505: xfonts-utils:arm64=1:7.7+7 Downloading dependency 246 of 505: libglib2.0-dev-bin:arm64=2.86.3-4 Downloading dependency 247 of 505: libsynctex2:arm64=2025.20250727.75242+ds-5 Downloading dependency 248 of 505: libxcb-shm0-dev:arm64=1.17.0-2+b1 Downloading dependency 249 of 505: libncursesw6:arm64=6.6+20251231-1 Downloading dependency 250 of 505: libboost-chrono1.83-dev:arm64=1.83.0-5+b1 Downloading dependency 251 of 505: uuid-dev:arm64=2.41.3-3 Downloading dependency 252 of 505: python3-uc-micro:arm64=1.0.3-1Get:1 http://deb.debian.org/debian unstable/main arm64 python3-uc-micro all 1.0.3-1 [5744 B] Fetched 5744 B in 0s (273 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4qoun3io/python3-uc-micro_1.0.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libspdlog1.15 arm64 1:1.15.3+ds-1 [99.9 kB] Fetched 99.9 kB in 0s (4754 kB/s) dpkg-name: info: moved 'libspdlog1.15_1%3a1.15.3+ds-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp80s20zpb/libspdlog1.15_1.15.3+ds-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsepol-dev arm64 3.9-2 [354 kB] Fetched 354 kB in 0s (14.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplo9j3l23/libsepol-dev_3.9-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.7.3-1 [96.5 kB] Fetched 96.5 kB in 0s (4718 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptwqu6qsx/libexpat1_2.7.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libopenjp2-7 arm64 2.5.4-1 [188 kB] Fetched 188 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgb93ujep/libopenjp2-7_2.5.4-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.22.1-2 [77.1 kB] Fetched 77.1 kB in 0s (3541 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprjaj99tu/libk5crypto3_1.22.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.53-1 [275 kB] Fetched 275 kB in 0s (13.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7f6l5p_x/libpng16-16t64_1.6.53-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-charset-normalizer arm64 3.4.4-2 [155 kB] Fetched 155 kB in 0s (5996 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3g33_pnr/python3-charset-normalizer_3.4.4-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libatomic1 arm64 15.2.0-12 [9852 B] Fetched 9852 B in 0s (462 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2c7jceue/libatomic1_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 lmodern all 2.005-1 [9480 kB] Fetched 9480 kB in 0s (105 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl2ekls8a/lmodern_2.005-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsemanage-common all 3.9-1 [7888 B] Fetched 7888 B in 0s (492 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpecv3n40d/libsemanage-common_3.9-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-date-time1.83-dev arm64 1.83.0-5+b1 [240 kB] Fetched 240 kB in 0s (10.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7zy4rlo4/libboost-date-time1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgomp1 arm64 15.2.0-12 [126 kB] Fetched 126 kB in 0s (5641 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphjkp4gz4/libgomp1_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-latex-recommended all 2025.20251127-1 [8513 kB] Fetched 8513 kB in 0s (106 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0mg6mngs/texlive-latex-recommended_2025.20251127-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-markupsafe arm64 3.0.3-1+b1 [14.3 kB] Fetched 14.3 kB in 0s (709 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb7g1jb8g/python3-markupsafe_3.0.3-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libthai-data all 0.1.30-1 [172 kB] Fetched 172 kB in 0s (7510 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph90nj6xd/libthai-data_0.1.30-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pluggy all 1.6.0-2 [27.2 kB] Fetched 27.2 kB in 0s (1221 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2oak65gp/python3-pluggy_1.6.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.22.1-2 [127 kB] Fetched 127 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp38gqgnct/libgssapi-krb5-2_1.22.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-numpy arm64 1:2.3.5+ds-3 [4184 kB] Fetched 4184 kB in 0s (74.0 MB/s) dpkg-name: info: moved 'python3-numpy_1%3a2.3.5+ds-3_arm64.deb' to '/srv/rebuilderd/tmp/tmp55wdq1g8/python3-numpy_2.3.5+ds-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-system1.83-dev arm64 1.83.0-5+b1 [232 kB] Fetched 232 kB in 0s (10.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbxbtfobs/libboost-system1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-python-dev arm64 1.83.0.2+b2 [3880 B] Fetched 3880 B in 0s (176 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7pnes7_0/libboost-python-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 shared-mime-info arm64 2.4-5+b3 [755 kB] Fetched 755 kB in 0s (32.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkebax5s9/shared-mime-info_2.4-5+b3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-10 [55.0 kB] Fetched 55.0 kB in 0s (2965 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxufhbs48/libsasl2-2_2.1.28+dfsg1-10_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 llvm-21-linker-tools arm64 1:21.1.8-1+b1 [1121 kB] Fetched 1121 kB in 0s (42.8 MB/s) dpkg-name: info: moved 'llvm-21-linker-tools_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmphq84knpq/llvm-21-linker-tools_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-3+b8 [24.9 kB] Fetched 24.9 kB in 0s (1152 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4cjs6zcc/libcom-err2_1.47.2-3+b8_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdav1d7 arm64 1.5.3-1 [246 kB] Fetched 246 kB in 0s (11.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphiwjmzry/libdav1d7_1.5.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-yaml arm64 6.0.3-1 [159 kB] Fetched 159 kB in 0s (7666 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0cdref8d/python3-yaml_6.0.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 hicolor-icon-theme all 0.18-2 [11.8 kB] Fetched 11.8 kB in 0s (530 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpccfogq4b/hicolor-icon-theme_0.18-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-binaries arm64 2025.20250727.75242+ds-5 [7432 kB] Fetched 7432 kB in 0s (102 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbdbylu25/texlive-binaries_2025.20250727.75242+ds-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB] Fetched 125 kB in 0s (5614 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkn2t1845/libwebpmux3_1.5.0-0.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 cpp arm64 4:15.2.0-4 [1568 B] Fetched 1568 B in 0s (77.9 kB/s) dpkg-name: info: moved 'cpp_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpgfc357_p/cpp_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 12.3.0-4 [480 kB] Fetched 480 kB in 0s (21.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp44k5xjkv/libharfbuzz0b_12.3.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpam0g arm64 1.7.0-5 [68.8 kB] Fetched 68.8 kB in 0s (3188 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyjar15z_/libpam0g_1.7.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Fetched 9716 B in 0s (462 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp35wxkaxm/libkeyutils1_1.6.3-6_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b2 [917 kB] Fetched 917 kB in 0s (39.4 MB/s) dpkg-name: info: moved 'zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b2_arm64.deb' to '/srv/rebuilderd/tmp/tmpso9vhl4u/zlib1g-dev_1.3.dfsg+really1.3.1-1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcommons-parent-java all 56-1 [10.8 kB] Fetched 10.8 kB in 0s (488 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzhz7713p/libcommons-parent-java_56-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.11-1+b1 [770 kB] Fetched 770 kB in 0s (32.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8di3uoxs/python3.13_3.13.11-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgdbm-compat4t64 arm64 1.26-1 [52.8 kB] Fetched 52.8 kB in 0s (2402 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbxmt_iuj/libgdbm-compat4t64_1.26-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtexlua53-5 arm64 2025.20250727.75242+ds-5 [107 kB] Fetched 107 kB in 0s (5064 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp778m2bze/libtexlua53-5_2025.20250727.75242+ds-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgc1 arm64 1:8.2.10-1 [244 kB] Fetched 244 kB in 0s (10.5 MB/s) dpkg-name: info: moved 'libgc1_1%3a8.2.10-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpv7sxgwj4/libgc1_8.2.10-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-9 [871 kB] Fetched 871 kB in 0s (39.1 MB/s) dpkg-name: info: moved 'procps_2%3a4.0.4-9_arm64.deb' to '/srv/rebuilderd/tmp/tmpcutq1oi0/procps_4.0.4-9_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libstdc++-15-dev arm64 15.2.0-12 [2348 kB] Fetched 2348 kB in 0s (77.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwdjsywr5/libstdc++-15-dev_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python-babel-localedata all 2.17.0-2 [6052 kB] Fetched 6052 kB in 0s (89.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6ympub_j/python-babel-localedata_2.17.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.17-1 [152 kB] Fetched 152 kB in 0s (7868 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzb4wg_l2/liblcms2-2_2.17-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxext-dev arm64 2:1.3.4-1+b3 [105 kB] Fetched 105 kB in 0s (4769 kB/s) dpkg-name: info: moved 'libxext-dev_2%3a1.3.4-1+b3_arm64.deb' to '/srv/rebuilderd/tmp/tmpe6xcxn1r/libxext-dev_1.3.4-1+b3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pil arm64 12.0.0-1+b1 [522 kB] Fetched 522 kB in 0s (21.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9gy65z8j/python3-pil_12.0.0-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf2.0-common all 2.44.4+dfsg-1 [313 kB] Fetched 313 kB in 0s (13.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpft2ukx8o/libgdk-pixbuf2.0-common_2.44.4+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.5.2-3 [23.0 kB] Fetched 23.0 kB in 0s (1054 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd1scnhx8/libffi8_3.5.2-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgcc-s1 arm64 15.2.0-12 [53.4 kB] Fetched 53.4 kB in 0s (2599 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp14znrnu1/libgcc-s1_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-numpy-dev arm64 1:2.3.5+ds-3 [135 kB] Fetched 135 kB in 0s (8117 kB/s) dpkg-name: info: moved 'python3-numpy-dev_1%3a2.3.5+ds-3_arm64.deb' to '/srv/rebuilderd/tmp/tmp51xwgpj2/python3-numpy-dev_2.3.5+ds-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpangocairo-1.0-0 arm64 1.57.0-1 [34.1 kB] Fetched 34.1 kB in 0s (1671 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvv9jfme9/libpangocairo-1.0-0_1.57.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-certifi all 2026.1.4+ds-1 [10.1 kB] Fetched 10.1 kB in 0s (445 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeei1qv2t/python3-certifi_2026.1.4+ds-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 gcc arm64 4:15.2.0-4 [5156 B] Fetched 5156 B in 0s (213 kB/s) dpkg-name: info: moved 'gcc_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpi5psdd22/gcc_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-commonmark all 0.9.1-8 [45.5 kB] Fetched 45.5 kB in 0s (2429 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm7pslvj3/python3-commonmark_0.9.1-8_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 gcc-15-aarch64-linux-gnu arm64 15.2.0-12 [19.6 MB] Fetched 19.6 MB in 0s (85.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptz3fpx9o/gcc-15-aarch64-linux-gnu_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libuuid1 arm64 2.41.3-3 [38.2 kB] Fetched 38.2 kB in 0s (1752 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwyczhtrd/libuuid1_2.41.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libx11-dev arm64 2:1.8.12-1 [883 kB] Fetched 883 kB in 0s (34.7 MB/s) dpkg-name: info: moved 'libx11-dev_2%3a1.8.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp_yidlspo/libx11-dev_1.8.12-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 cmake-data all 4.2.1-2 [2555 kB] Fetched 2555 kB in 0s (102 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfp0m0zra/cmake-data_4.2.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.29 [92.6 kB] Fetched 92.6 kB in 0s (4362 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw1t0ninc/libdebhelper-perl_13.29_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libssl3t64 arm64 3.5.4-1 [2725 kB] Fetched 2725 kB in 0s (80.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfh5vkln5/libssl3t64_3.5.4-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 gzip arm64 1.13-1 [135 kB] Fetched 135 kB in 0s (6049 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkzewznem/gzip_1.13-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.8.2-1 [360 kB] Fetched 360 kB in 0s (16.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyj21_y6z/liblzma-dev_5.8.2-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-fonts-recommended all 2025.20251127-1 [4992 kB] Fetched 4992 kB in 0s (89.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmposzmhb4c/texlive-fonts-recommended_2025.20251127-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-latex-extra all 2025.20251127-2 [32.9 MB] Fetched 32.9 MB in 0s (103 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplsjuu4r_/texlive-latex-extra_2025.20251127-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.16-2 [100 kB] Fetched 100 kB in 0s (5013 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuldojaev/dwz_0.16-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcc1-0 arm64 15.2.0-12 [41.3 kB] Fetched 41.3 kB in 0s (2088 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7v3mxoe7/libcc1-0_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Fetched 795 kB in 0s (32.1 MB/s) dpkg-name: info: moved 'libx11-6_2%3a1.8.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp8invxknw/libx11-6_1.8.12-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.18.1-3 [878 kB] Fetched 878 kB in 0s (36.7 MB/s) dpkg-name: info: moved 'automake_1%3a1.18.1-3_all.deb' to '/srv/rebuilderd/tmp/tmp4m2kcxxh/automake_1.18.1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxi6 arm64 2:1.8.2-2 [77.5 kB] Fetched 77.5 kB in 0s (3484 kB/s) dpkg-name: info: moved 'libxi6_2%3a1.8.2-2_arm64.deb' to '/srv/rebuilderd/tmp/tmp43okwjhs/libxi6_1.8.2-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Fetched 29.6 kB in 0s (1355 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmbqw3898/pkgconf-bin_1.8.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 postgresql-server-dev-18 arm64 18.1-2 [1370 kB] Fetched 1370 kB in 0s (50.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_pxmtz96/postgresql-server-dev-18_18.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.7.1-1 [334 kB] Fetched 334 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz024lcr_/libtiff6_4.7.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 fontconfig arm64 2.17.1-3 [190 kB] Fetched 190 kB in 0s (6922 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphca50yis/fontconfig_2.17.1-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libudev1 arm64 259-1 [148 kB] Fetched 148 kB in 0s (7135 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyjvb2gm7/libudev1_259-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libctf0 arm64 2.45.50.20251209-1 [85.6 kB] Fetched 85.6 kB in 0s (3907 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzvwbfxj5/libctf0_2.45.50.20251209-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libice6 arm64 2:1.1.1-1 [62.1 kB] Fetched 62.1 kB in 0s (3054 kB/s) dpkg-name: info: moved 'libice6_2%3a1.1.1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpkdek6p9z/libice6_1.1.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 binutils-aarch64-linux-gnu arm64 2.45.50.20251209-1 [858 kB] Fetched 858 kB in 0s (35.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvalohcrq/binutils-aarch64-linux-gnu_2.45.50.20251209-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpython3-dev arm64 3.13.9-3 [10.8 kB] Fetched 10.8 kB in 0s (528 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpre6eavyx/libpython3-dev_3.13.9-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpixman-1-dev arm64 0.46.4-1 [11.9 kB] Fetched 11.9 kB in 0s (647 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsyu46hlk/libpixman-1-dev_0.46.4-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.46.4-1 [174 kB] Fetched 174 kB in 0s (8119 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpylmda1d7/libpixman-1-0_0.46.4-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 fonts-lmodern all 2.005-1 [4540 kB] Fetched 4540 kB in 0s (87.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8j2aa_kw/fonts-lmodern_2.005-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 init-system-helpers all 1.69 [39.3 kB] Fetched 39.3 kB in 0s (2165 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk6hzg53o/init-system-helpers_1.69_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 librsvg2-2 arm64 2.61.3+dfsg-3 [1617 kB] Fetched 1617 kB in 0s (55.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdzx9im_o/librsvg2-2_2.61.3+dfsg-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblz4-1 arm64 1.10.0-6 [66.7 kB] Fetched 66.7 kB in 0s (3306 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3_y3igc1/liblz4-1_1.10.0-6_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pytest all 9.0.2-2 [275 kB] Fetched 275 kB in 0s (12.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9q5sneyk/python3-pytest_9.0.2-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 docutils-common all 0.22.4+dfsg-1 [128 kB] Fetched 128 kB in 0s (6157 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm97j8yjp/docutils-common_0.22.4+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libicu76 arm64 76.1-4 [9524 kB] Fetched 9524 kB in 0s (112 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvgfdg16v/libicu76_76.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpam-runtime all 1.7.0-5 [249 kB] Fetched 249 kB in 0s (12.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwg_18vyo/libpam-runtime_1.7.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsepol2 arm64 3.9-2 [263 kB] Fetched 263 kB in 0s (12.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpupm6athu/libsepol2_3.9-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblua5.4-0 arm64 5.4.8-1 [134 kB] Fetched 134 kB in 0s (6664 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt9t_akqq/liblua5.4-0_5.4.8-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.41.3-3 [97.7 kB] Fetched 97.7 kB in 0s (4090 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpws732c_4/bsdextrautils_2.41.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcairo2-dev arm64 1.18.4-3 [43.2 kB] Fetched 43.2 kB in 0s (1663 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpljum771f/libcairo2-dev_1.18.4-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcoordgen3 arm64 3.0.2-3 [190 kB] Fetched 190 kB in 0s (7844 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsh2jszo5/libcoordgen3_3.0.2-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 native-architecture all 0.2.6 [2264 B] Fetched 2264 B in 0s (112 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmvhjivtv/native-architecture_0.2.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libncurses6 arm64 6.6+20251231-1 [96.7 kB] Fetched 96.7 kB in 0s (3153 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpegsvvdez/libncurses6_6.6+20251231-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 g++-15 arm64 15.2.0-12 [25.0 kB] Fetched 25.0 kB in 0s (1417 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc545dx9q/g++-15_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-system-dev arm64 1.83.0.2+b2 [3720 B] Fetched 3720 B in 0s (188 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfnnqux0t/libboost-system-dev_1.83.0.2+b2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260115T082023Z forky/main arm64 libinchi1.07 arm64 1.07.3+dfsg-1 [499 kB] Fetched 499 kB in 0s (22.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoyu9sl85/libinchi1.07_1.07.3+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libheif-plugin-libde265 arm64 1.20.2-2+b4 [16.9 kB] Fetched 16.9 kB in 0s (915 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgq11nsjd/libheif-plugin-libde265_1.20.2-2+b4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.4-3 [479 kB] Fetched 479 kB in 0s (20.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5gggru8h/libcairo2_1.18.4-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-markdown-it all 3.0.0-3 [59.5 kB] Fetched 59.5 kB in 0s (2000 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmhfk9_9u/python3-markdown-it_3.0.0-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libitm1 arm64 15.2.0-12 [24.1 kB] Fetched 24.1 kB in 0s (879 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnx0kbz1u/libitm1_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Fetched 35.3 kB in 0s (1343 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr99zdw2m/libpkgconf3_1.8.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 postgresql-common all 287 [112 kB] Fetched 112 kB in 0s (5607 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphylrvpdb/postgresql-common_287_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 cpp-aarch64-linux-gnu arm64 4:15.2.0-4 [5288 B] Fetched 5288 B in 0s (273 kB/s) dpkg-name: info: moved 'cpp-aarch64-linux-gnu_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpqgdvdum8/cpp-aarch64-linux-gnu_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-python1.83.0 arm64 1.83.0-5+b1 [332 kB] Fetched 332 kB in 0s (14.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8lqu4rty/libboost-python1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Fetched 494 kB in 0s (23.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpryzhebrr/autoconf_2.72-3.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Fetched 103 kB in 0s (4004 kB/s) dpkg-name: info: moved 'libmagic1t64_1%3a5.46-5_arm64.deb' to '/srv/rebuilderd/tmp/tmpp2lzsg3z/libmagic1t64_5.46-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.2-1 [772 kB] Fetched 772 kB in 0s (33.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg7uz1ycg/autopoint_0.23.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-4 [173 kB] Fetched 173 kB in 0s (5585 kB/s) dpkg-name: info: moved 'libjpeg62-turbo_1%3a2.1.5-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpcmxv605a/libjpeg62-turbo_2.1.5-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libbsd0 arm64 0.12.2-2 [129 kB] Fetched 129 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnj5_y1pt/libbsd0_0.12.2-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Fetched 31.9 kB in 0s (1586 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8j1h5pws/libbz2-dev_1.0.8-6_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Fetched 27.0 kB in 0s (1215 kB/s) dpkg-name: info: moved 'libxrender1_1%3a0.9.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpjkdiwgpo/libxrender1_0.9.12-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Fetched 43.7 kB in 0s (2375 kB/s) dpkg-name: info: moved 'file_1%3a5.46-5_arm64.deb' to '/srv/rebuilderd/tmp/tmpq41k50sq/file_5.46-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.22.1-2 [32.2 kB] Fetched 32.2 kB in 0s (1673 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaxzzwamv/libkrb5support0_1.22.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 binutils-common arm64 2.45.50.20251209-1 [2541 kB] Fetched 2541 kB in 0s (74.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4samd31d/binutils-common_2.45.50.20251209-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.2-1 [242 kB] Fetched 242 kB in 0s (12.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3u7p9873/gettext-base_0.23.2-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-10 [1130 kB] Fetched 1130 kB in 0s (42.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5njcbapl/groff-base_1.23.0-10_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b9 [305 kB] Fetched 305 kB in 0s (15.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb_kctrko/libbrotli-dev_1.1.0-2+b9_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 xz-utils arm64 5.8.2-1 [703 kB] Fetched 703 kB in 0s (39.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp02a0sosc/xz-utils_5.8.2-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxml2-16 arm64 2.15.1+dfsg-2+b1 [591 kB] Fetched 591 kB in 0s (22.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp54r8merp/libxml2-16_2.15.1+dfsg-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ncurses-bin arm64 6.6+20251231-1 [438 kB] Fetched 438 kB in 0s (16.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpazha6izu/ncurses-bin_6.6+20251231-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dpkg-dev all 1.23.3 [1318 kB] Fetched 1318 kB in 0s (33.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpokqznd6z/dpkg-dev_1.23.3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Fetched 104 kB in 0s (3877 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4yqc_cyn/libarchive-zip-perl_1.68-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Fetched 108 kB in 0s (4789 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw5lusrfi/python3-chardet_5.2.0+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxaw7 arm64 2:1.0.16-1 [195 kB] Fetched 195 kB in 0s (9153 kB/s) dpkg-name: info: moved 'libxaw7_2%3a1.0.16-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpn_9sx21h/libxaw7_1.0.16-1_arm64.deb' Downloading dependency 253 of 505: libspdlog1.15:arm64=1:1.15.3+ds-1 Downloading dependency 254 of 505: libsepol-dev:arm64=3.9-2 Downloading dependency 255 of 505: libexpat1:arm64=2.7.3-1 Downloading dependency 256 of 505: libopenjp2-7:arm64=2.5.4-1 Downloading dependency 257 of 505: libk5crypto3:arm64=1.22.1-2 Downloading dependency 258 of 505: libpng16-16t64:arm64=1.6.53-1 Downloading dependency 259 of 505: python3-charset-normalizer:arm64=3.4.4-2 Downloading dependency 260 of 505: libatomic1:arm64=15.2.0-12 Downloading dependency 261 of 505: lmodern:arm64=2.005-1 Downloading dependency 262 of 505: libsemanage-common:arm64=3.9-1 Downloading dependency 263 of 505: libboost-date-time1.83-dev:arm64=1.83.0-5+b1 Downloading dependency 264 of 505: libgomp1:arm64=15.2.0-12 Downloading dependency 265 of 505: texlive-latex-recommended:arm64=2025.20251127-1 Downloading dependency 266 of 505: 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dependency 296 of 505: libxext-dev:arm64=2:1.3.4-1+b3 Downloading dependency 297 of 505: python3-pil:arm64=12.0.0-1+b1 Downloading dependency 298 of 505: libgdk-pixbuf2.0-common:arm64=2.44.4+dfsg-1 Downloading dependency 299 of 505: libffi8:arm64=3.5.2-3 Downloading dependency 300 of 505: libgcc-s1:arm64=15.2.0-12 Downloading dependency 301 of 505: python3-numpy-dev:arm64=1:2.3.5+ds-3 Downloading dependency 302 of 505: libpangocairo-1.0-0:arm64=1.57.0-1 Downloading dependency 303 of 505: python3-certifi:arm64=2026.1.4+ds-1 Downloading dependency 304 of 505: gcc:arm64=4:15.2.0-4 Downloading dependency 305 of 505: python3-commonmark:arm64=0.9.1-8 Downloading dependency 306 of 505: gcc-15-aarch64-linux-gnu:arm64=15.2.0-12 Downloading dependency 307 of 505: libuuid1:arm64=2.41.3-3 Downloading dependency 308 of 505: libx11-dev:arm64=2:1.8.12-1 Downloading dependency 309 of 505: cmake-data:arm64=4.2.1-2 Downloading dependency 310 of 505: libdebhelper-perl:arm64=13.29 Downloading dependency 311 of 505: libssl3t64:arm64=3.5.4-1 Downloading dependency 312 of 505: gzip:arm64=1.13-1 Downloading dependency 313 of 505: liblzma-dev:arm64=5.8.2-1 Downloading dependency 314 of 505: texlive-fonts-recommended:arm64=2025.20251127-1 Downloading dependency 315 of 505: texlive-latex-extra:arm64=2025.20251127-2 Downloading dependency 316 of 505: dwz:arm64=0.16-2 Downloading dependency 317 of 505: libcc1-0:arm64=15.2.0-12 Downloading dependency 318 of 505: libx11-6:arm64=2:1.8.12-1 Downloading dependency 319 of 505: automake:arm64=1:1.18.1-3 Downloading dependency 320 of 505: libxi6:arm64=2:1.8.2-2 Downloading dependency 321 of 505: pkgconf-bin:arm64=1.8.1-4 Downloading dependency 322 of 505: postgresql-server-dev-18:arm64=18.1-2 Downloading dependency 323 of 505: libtiff6:arm64=4.7.1-1 Downloading dependency 324 of 505: fontconfig:arm64=2.17.1-3 Downloading dependency 325 of 505: libudev1:arm64=259-1 Downloading dependency 326 of 505: libctf0:arm64=2.45.50.20251209-1 Downloading dependency 327 of 505: libice6:arm64=2:1.1.1-1 Downloading dependency 328 of 505: binutils-aarch64-linux-gnu:arm64=2.45.50.20251209-1 Downloading dependency 329 of 505: libpython3-dev:arm64=3.13.9-3 Downloading dependency 330 of 505: libpixman-1-dev:arm64=0.46.4-1 Downloading dependency 331 of 505: libpixman-1-0:arm64=0.46.4-1 Downloading dependency 332 of 505: fonts-lmodern:arm64=2.005-1 Downloading dependency 333 of 505: init-system-helpers:arm64=1.69 Downloading dependency 334 of 505: librsvg2-2:arm64=2.61.3+dfsg-3 Downloading dependency 335 of 505: liblz4-1:arm64=1.10.0-6 Downloading dependency 336 of 505: python3-pytest:arm64=9.0.2-2 Downloading dependency 337 of 505: docutils-common:arm64=0.22.4+dfsg-1 Downloading dependency 338 of 505: libicu76:arm64=76.1-4 Downloading dependency 339 of 505: libpam-runtime:arm64=1.7.0-5 Downloading dependency 340 of 505: libsepol2:arm64=3.9-2 Downloading dependency 341 of 505: liblua5.4-0:arm64=5.4.8-1 Downloading dependency 342 of 505: bsdextrautils:arm64=2.41.3-3 Downloading dependency 343 of 505: libcairo2-dev:arm64=1.18.4-3 Downloading dependency 344 of 505: libcoordgen3:arm64=3.0.2-3 Downloading dependency 345 of 505: native-architecture:arm64=0.2.6 Downloading dependency 346 of 505: libncurses6:arm64=6.6+20251231-1 Downloading dependency 347 of 505: g++-15:arm64=15.2.0-12 Downloading dependency 348 of 505: libboost-system-dev:arm64=1.83.0.2+b2 Downloading dependency 349 of 505: libinchi1.07:arm64=1.07.3+dfsg-1 Downloading dependency 350 of 505: libheif-plugin-libde265:arm64=1.20.2-2+b4 Downloading dependency 351 of 505: libcairo2:arm64=1.18.4-3 Downloading dependency 352 of 505: python3-markdown-it:arm64=3.0.0-3 Downloading dependency 353 of 505: libitm1:arm64=15.2.0-12 Downloading dependency 354 of 505: libpkgconf3:arm64=1.8.1-4 Downloading dependency 355 of 505: postgresql-common:arm64=287 Downloading dependency 356 of 505: cpp-aarch64-linux-gnu:arm64=4:15.2.0-4 Downloading dependency 357 of 505: libboost-python1.83.0:arm64=1.83.0-5+b1 Downloading dependency 358 of 505: autoconf:arm64=2.72-3.1 Downloading dependency 359 of 505: libmagic1t64:arm64=1:5.46-5 Downloading dependency 360 of 505: autopoint:arm64=0.23.2-1 Downloading dependency 361 of 505: libjpeg62-turbo:arm64=1:2.1.5-4 Downloading dependency 362 of 505: libbsd0:arm64=0.12.2-2 Downloading dependency 363 of 505: libbz2-dev:arm64=1.0.8-6 Downloading dependency 364 of 505: libxrender1:arm64=1:0.9.12-1 Downloading dependency 365 of 505: file:arm64=1:5.46-5 Downloading dependency 366 of 505: libkrb5support0:arm64=1.22.1-2 Downloading dependency 367 of 505: binutils-common:arm64=2.45.50.20251209-1 Downloading dependency 368 of 505: gettext-base:arm64=0.23.2-1 Downloading dependency 369 of 505: groff-base:arm64=1.23.0-10 Downloading dependency 370 of 505: libbrotli-dev:arm64=1.1.0-2+b9 Downloading dependency 371 of 505: xz-utils:arm64=5.8.2-1 Downloading dependency 372 of 505: libxml2-16:arm64=2.15.1+dfsg-2+b1 Downloading dependency 373 of 505: ncurses-bin:arm64=6.6+20251231-1 Downloading dependency 374 of 505: dpkg-dev:arm64=1.23.3 Downloading dependency 375 of 505: libarchive-zip-perl:arm64=1.68-1 Downloading dependency 376 of 505: python3-chardet:arm64=5.2.0+dfsg-2 Downloading dependency 377 of 505: libxaw7:arm64=2:1.0.16-1 Downloading dependency 378 of 505: libpam-modules-bin:arm64=1.7.0-5Get:1 http://deb.debian.org/debian unstable/main arm64 libpam-modules-bin arm64 1.7.0-5 [48.3 kB] Fetched 48.3 kB in 0s (2365 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3s1ywljr/libpam-modules-bin_1.7.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libselinux1 arm64 3.9-4+b1 [80.8 kB] Fetched 80.8 kB in 0s (3617 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3wonmpm0/libselinux1_3.9-4+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20250419 [162 kB] Fetched 162 kB in 0s (7253 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt60u20zg/ca-certificates_20250419_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpython3.13 arm64 3.13.11-1+b1 [2059 kB] Fetched 2059 kB in 0s (94.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3nlxghhk/libpython3.13_3.13.11-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-system1.83.0 arm64 1.83.0-5+b1 [231 kB] Fetched 231 kB in 0s (23.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkree8u7_/libboost-system1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libclang1-21 arm64 1:21.1.8-1+b1 [6932 kB] Fetched 6932 kB in 0s (87.0 MB/s) dpkg-name: info: moved 'libclang1-21_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmp1hzmthgp/libclang1-21_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 passwd arm64 1:4.19.0-4 [1266 kB] Fetched 1266 kB in 0s (41.3 MB/s) dpkg-name: info: moved 'passwd_1%3a4.19.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpdz5v20ey/passwd_4.19.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgcc-15-dev arm64 15.2.0-12 [2365 kB] Fetched 2365 kB in 0s (69.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbi81vjys/libgcc-15-dev_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libexpat1-dev arm64 2.7.3-1 [150 kB] Fetched 150 kB in 0s (7194 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9mzt_a84/libexpat1-dev_2.7.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 tar arm64 1.35+dfsg-3.1 [802 kB] Fetched 802 kB in 0s (36.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyxkpnis2/tar_1.35+dfsg-3.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libuv1t64 arm64 1.51.0-2 [150 kB] Fetched 150 kB in 0s (7170 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3n9gclld/libuv1t64_1.51.0-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 architecture-properties arm64 0.2.6 [2336 B] Fetched 2336 B in 0s (116 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiouk29yf/architecture-properties_0.2.6_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 catch2 all 3.7.1-0.6 [5216 B] Fetched 5216 B in 0s (233 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvx6a3yui/catch2_3.7.1-0.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3.13-dev arm64 3.13.11-1+b1 [504 kB] Fetched 504 kB in 0s (22.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphq2hrq8f/python3.13-dev_3.13.11-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblzo2-2 arm64 2.10-3+b1 [49.6 kB] Fetched 49.6 kB in 0s (2228 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2vvhhrg5/liblzo2-2_2.10-3+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-python1.83-dev arm64 1.83.0-5+b1 [354 kB] Fetched 354 kB in 0s (14.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgsiycvbw/libboost-python1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libubsan1 arm64 15.2.0-12 [1064 kB] Fetched 1064 kB in 0s (38.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjqjrpi2b/libubsan1_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Fetched 49.2 kB in 0s (2420 kB/s) dpkg-name: info: moved 'libxext6_2%3a1.3.4-1+b3_arm64.deb' to '/srv/rebuilderd/tmp/tmpbk57shqz/libxext6_1.3.4-1+b3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Fetched 22.9 kB in 0s (1133 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpawrcf4zm/intltool-debian_0.35.0+20060710.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 g++ arm64 4:15.2.0-4 [1332 B] Fetched 1332 B in 0s (73.5 kB/s) dpkg-name: info: moved 'g++_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpzw44bi1m/g++_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libltdl7 arm64 2.5.4-9 [415 kB] Fetched 415 kB in 0s (18.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9scdftm1/libltdl7_2.5.4-9_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxml2-dev arm64 2.15.1+dfsg-2+b1 [720 kB] Fetched 720 kB in 0s (29.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpir3kz4d3/libxml2-dev_2.15.1+dfsg-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ncurses-base all 6.6+20251231-1 [277 kB] Fetched 277 kB in 0s (12.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9e6m65i2/ncurses-base_6.6+20251231-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.11-1+b1 [859 kB] Fetched 859 kB in 0s (34.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpijw22ul6/libpython3.13-minimal_3.13.11-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsm-dev arm64 2:1.2.6-1 [40.2 kB] Fetched 40.2 kB in 0s (1929 kB/s) dpkg-name: info: moved 'libsm-dev_2%3a1.2.6-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpn6_odw_2/libsm-dev_1.2.6-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+26 [217 kB] Fetched 217 kB in 0s (12.7 MB/s) dpkg-name: info: moved 'x11-common_1%3a7.7+26_all.deb' to '/srv/rebuilderd/tmp/tmpj5c_v9yp/x11-common_7.7+26_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libnuma1 arm64 2.0.19-1 [21.6 kB] Fetched 21.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps1qk0fo0/libnuma1_2.0.19-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-2 [40.3 kB] Fetched 40.3 kB in 0s (2185 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5v1it_oq/libpipeline1_1.5.8-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-regex-dev arm64 1.83.0.2+b2 [3852 B] Fetched 3852 B in 0s (139 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz91gfvzc/libboost-regex-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 binutils arm64 2.45.50.20251209-1 [278 kB] Fetched 278 kB in 0s (14.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzvnhgl4l/binutils_2.45.50.20251209-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.1-1 [1453 kB] Fetched 1453 kB in 0s (54.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8xkklxi0/man-db_2.13.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-babel all 2.17.0-2 [117 kB] Fetched 117 kB in 0s (5668 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbvorsbn7/python3-babel_2.17.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 sgml-base all 1.31+nmu1 [10.9 kB] Fetched 10.9 kB in 0s (449 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyfdywwbe/sgml-base_1.31+nmu1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-serialization1.83.0 arm64 1.83.0-5+b1 [327 kB] Fetched 327 kB in 0s (15.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1xy2hkh1/libboost-serialization1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpython3.13-dev arm64 3.13.11-1+b1 [5047 kB] Fetched 5047 kB in 0s (85.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppqgrwsfo/libpython3.13-dev_3.13.11-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsysprof-capture-4-dev arm64 49.0-5 [49.0 kB] Fetched 49.0 kB in 0s (2536 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4z38xd6s/libsysprof-capture-4-dev_49.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libheif1 arm64 1.20.2-2+b4 [504 kB] Fetched 504 kB in 0s (22.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvnl3bmtf/libheif1_1.20.2-2+b4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-5 [26.7 kB] Fetched 26.7 kB in 0s (1313 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbjgeikxc/libfribidi0_1.0.16-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libhogweed6t64 arm64 3.10.2-1 [332 kB] Fetched 332 kB in 0s (14.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwq_hvyio/libhogweed6t64_3.10.2-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Fetched 235 kB in 0s (11.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb_5up58u/libssh2-1t64_1.11.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 flex arm64 2.6.4-8.2+b4 [412 kB] Fetched 412 kB in 0s (20.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdl4ton70/flex_2.6.4-8.2+b4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-sphinx all 8.2.3-12 [478 kB] Fetched 478 kB in 0s (20.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr9zrzqd9/python3-sphinx_8.2.3-12_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Fetched 8808 B in 0s (493 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwxcln52o/libtext-wrapi18n-perl_0.06-10_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-11 [70.8 kB] Fetched 70.8 kB in 0s (3347 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa6umdn0r/libgraphite2-3_1.3.14-11_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libhwasan0 arm64 15.2.0-12 [1479 kB] Fetched 1479 kB in 0s (34.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu84oom3j/libhwasan0_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-myst-parser all 4.0.1-1 [78.8 kB] Fetched 78.8 kB in 0s (2461 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwmadycnz/python3-myst-parser_4.0.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libnettle8t64 arm64 3.10.2-1 [305 kB] Fetched 305 kB in 0s (12.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph3ccqd66/libnettle8t64_3.10.2-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpq5 arm64 18.1-2 [238 kB] Fetched 238 kB in 0s (12.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_ftey8lt/libpq5_18.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 clang-21 arm64 1:21.1.8-1+b1 [161 kB] Fetched 161 kB in 0s (6799 kB/s) dpkg-name: info: moved 'clang-21_1%3a21.1.8-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmpj9804mrs/clang-21_21.1.8-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libblkid1 arm64 2.41.3-3 [167 kB] Fetched 167 kB in 0s (7771 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprbt80mjp/libblkid1_2.41.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libkpathsea6 arm64 2025.20250727.75242+ds-5 [155 kB] Fetched 155 kB in 0s (6391 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp41nb9ga8/libkpathsea6_2025.20250727.75242+ds-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libglib2.0-bin arm64 2.86.3-4 [129 kB] Fetched 129 kB in 0s (6018 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv9x7frf9/libglib2.0-bin_2.86.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libicu-dev arm64 76.1-4 [10.6 MB] Fetched 10.6 MB in 0s (96.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwv0ku7qt/libicu-dev_76.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-atomic1.83.0 arm64 1.83.0-5+b1 [235 kB] Fetched 235 kB in 0s (12.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkmkqddu4/libboost-atomic1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgirepository-2.0-0 arm64 2.86.3-4 [136 kB] Fetched 136 kB in 0s (6116 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfnwyjwtq/libgirepository-2.0-0_2.86.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 latexmk all 1:4.87~ds-1 [514 kB] Fetched 514 kB in 0s (20.9 MB/s) dpkg-name: info: moved 'latexmk_1%3a4.87~ds-1_all.deb' to '/srv/rebuilderd/tmp/tmpmlbmbtvw/latexmk_4.87~ds-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b9 [295 kB] Fetched 295 kB in 0s (12.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwan9bb0l/libbrotli1_1.1.0-2+b9_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 g++-15-aarch64-linux-gnu arm64 15.2.0-12 [11.1 MB] Fetched 11.1 MB in 0s (118 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc3z1ra7r/g++-15-aarch64-linux-gnu_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Fetched 338 kB in 0s (17.0 MB/s) dpkg-name: info: moved 'libmagic-mgc_1%3a5.46-5_arm64.deb' to '/srv/rebuilderd/tmp/tmpfm6x_pna/libmagic-mgc_5.46-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfreetype-dev arm64 2.14.1+dfsg-2 [635 kB] Fetched 635 kB in 0s (17.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfkmvlz0k/libfreetype-dev_2.14.1+dfsg-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-2 [27.9 kB] Fetched 27.9 kB in 0s (1405 kB/s) dpkg-name: info: moved 'libxdmcp6_1%3a1.1.5-2_arm64.deb' to '/srv/rebuilderd/tmp/tmpp3k6jbuh/libxdmcp6_1.1.5-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 bash arm64 5.3-1 [1507 kB] Fetched 1507 kB in 0s (35.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7fcd0xcd/bash_5.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsqlite3-dev arm64 3.46.1-8 [1098 kB] Fetched 1098 kB in 0s (39.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphnck5jy7/libsqlite3-dev_3.46.1-8_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.9-3 [27.6 kB] Fetched 27.6 kB in 0s (1693 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3vi40bac/python3-minimal_3.13.9-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.20-2 [315 kB] Fetched 315 kB in 0s (15.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaopuh9ay/m4_1.4.20-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Fetched 271 kB in 0s (8681 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqf2jxaxk/libwebp7_1.5.0-0.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-thread1.83.0 arm64 1.83.0-5+b1 [267 kB] Fetched 267 kB in 0s (11.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6x4wbvcx/libboost-thread1.83.0_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-iniconfig all 2.1.0-2 [7540 B] Fetched 7540 B in 0s (331 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp78226n93/python3-iniconfig_2.1.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-jinja2 all 3.1.6-1 [107 kB] Fetched 107 kB in 0s (5071 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb0gbikxs/python3-jinja2_3.1.6-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 cmake arm64 4.2.1-2 [10.7 MB] Fetched 10.7 MB in 0s (52.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpebs6g3yt/cmake_4.2.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgdbm6t64 arm64 1.26-1 [77.5 kB] Fetched 77.5 kB in 0s (3988 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplmh5zjhy/libgdbm6t64_1.26-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-numpy1.83-dev arm64 1.83.0-5+b1 [250 kB] Fetched 250 kB in 0s (11.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgpctackt/libboost-numpy1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf-2.0-0 arm64 2.44.4+dfsg-1 [133 kB] Fetched 133 kB in 0s (5914 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9aeq60zd/libgdk-pixbuf-2.0-0_2.44.4+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpng-dev arm64 1.6.53-1 [362 kB] Fetched 362 kB in 0s (17.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcz5e7zmf/libpng-dev_1.6.53-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libapache-pom-java all 33-2 [5852 B] Fetched 5852 B in 0s (278 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr4jbjasg/libapache-pom-java_33-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpq-dev arm64 18.1-2 [160 kB] Fetched 160 kB in 0s (7894 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy7ebezjy/libpq-dev_18.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 postgresql-common-dev all 287 [73.3 kB] Fetched 73.3 kB in 0s (3787 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0v4cygmz/postgresql-common-dev_287_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libglib2.0-dev arm64 2.86.3-4 [58.1 kB] Fetched 58.1 kB in 0s (3645 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprcdbf_gz/libglib2.0-dev_2.86.3-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libperl5.40 arm64 5.40.1-7 [4134 kB] Fetched 4134 kB in 0s (96.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp19_xpsyo/libperl5.40_5.40.1-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-dateutil all 2.9.0-4 [79.4 kB] Fetched 79.4 kB in 0s (3786 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6sxgcf7r/python3-dateutil_2.9.0-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libglib2.0-data all 2.86.3-4 [1287 kB] Fetched 1287 kB in 0s (54.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3m2fws45/libglib2.0-data_2.86.3-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcatch2-dev arm64 3.7.1-0.6 [588 kB] Fetched 588 kB in 0s (28.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp62q7vwe2/libcatch2-dev_3.7.1-0.6_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblzma5 arm64 5.8.2-1 [320 kB] Fetched 320 kB in 0s (15.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptphnm1zh/liblzma5_5.8.2-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpaper2 arm64 2.2.5-0.3+b3 [16.6 kB] Fetched 16.6 kB in 0s (823 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9j7qnxco/libpaper2_2.2.5-0.3+b3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB] Fetched 113 kB in 0s (3507 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpug1ge3zu/libwebpdemux2_1.5.0-0.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 base-files arm64 14 [72.9 kB] Fetched 72.9 kB in 0s (3476 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc0nmydyp/base-files_14_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-linkify-it all 2.0.3-1 [18.7 kB] Fetched 18.7 kB in 0s (924 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg1wymnv7/python3-linkify-it_2.0.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost1.83-dev arm64 1.83.0-5+b1 [10.6 MB] Fetched 10.6 MB in 0s (87.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnysjg_pb/libboost1.83-dev_1.83.0-5+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcairo-script-interpreter2 arm64 1.18.4-3 [58.0 kB] Fetched 58.0 kB in 0s (2617 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp115bfbqz/libcairo-script-interpreter2_1.18.4-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libisl23 arm64 0.27-1 [601 kB] Fetched 601 kB in 0s (32.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphl9gkta3/libisl23_0.27-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dpkg arm64 1.23.3 [1501 kB] Fetched 1501 kB in 0s (51.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx5vbhuxs/dpkg_1.23.3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxau-dev arm64 1:1.0.11-1 [23.9 kB] Fetched 23.9 kB in 0s (1302 kB/s) dpkg-name: info: moved 'libxau-dev_1%3a1.0.11-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp4ywdyxby/libxau-dev_1.0.11-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 21 [12.2 kB] Fetched 12.2 kB in 0s (681 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdm1s2bel/dh-autoreconf_21_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Fetched 8812 B in 0s (365 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjlgnmd2m/dh-strip-nondeterminism_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtsan2 arm64 15.2.0-12 [2399 kB] Fetched 2399 kB in 0s (88.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbmgf0hha/libtsan2_15.2.0-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libmaeparser-dev arm64 1.3.3-3 [13.5 kB] Fetched 13.5 kB in 0s (618 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0a8a6uk7/libmaeparser-dev_1.3.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 debianutils arm64 5.23.2 [92.4 kB] Fetched 92.4 kB in 0s (4871 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo8zqhct8/debianutils_5.23.2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-latex-base all 2025.20251127-1 [1327 kB] Fetched 1327 kB in 0s (44.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1hwjwsqw/texlive-latex-base_2025.20251127-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260115T082023Z forky/main arm64 libcurl4t64 arm64 8.18.0-1 [372 kB] Fetched 372 kB in 0s (17.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp__jwhqh/libcurl4t64_8.18.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.14.1+dfsg-2 [457 kB] Fetched 457 kB in 0s (21.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwaclc270/libfreetype6_2.14.1+dfsg-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpfm4 arm64 4.13.0+git106-g3e4031b-1 [73.3 kB] Fetched 73.3 kB in 0s (3502 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpio34_uz7/libpfm4_4.13.0+git106-g3e4031b-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libjsoncpp26 arm64 1.9.6-5 [72.4 kB] Fetched 72.4 kB in 0s (3508 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc_1f0dpz/libjsoncpp26_1.9.6-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxrender-dev arm64 1:0.9.12-1 [38.8 kB] Fetched 38.8 kB in 0s (1630 kB/s) dpkg-name: info: moved 'libxrender-dev_1%3a0.9.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp22z0e4yj/libxrender-dev_0.9.12-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 openssl-provider-legacy arm64 3.5.4-1 [306 kB] Fetched 306 kB in 0s (14.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxrceed5m/openssl-provider-legacy_3.5.4-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-urllib3 all 2.5.0-1.1 [117 kB] Fetched 117 kB in 0s (5532 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoipmtgt0/python3-urllib3_2.5.0-1.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ucf all 3.0052 [43.3 kB] Fetched 43.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpchvkclgq/ucf_3.0052_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260115T082023Z forky/main arm64 libinchi-dev arm64 1.07.3+dfsg-1 [19.6 kB] Fetched 19.6 kB in 0s (988 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptm7eudrl/libinchi-dev_1.07.3+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 bzip2 arm64 1.0.8-6 [39.5 kB] Fetched 39.5 kB in 0s (1912 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm199zdc_/bzip2_1.0.8-6_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsmartcols1 arm64 2.41.3-3 [139 kB] Fetched 139 kB in 0s (5163 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3s8ebf9p/libsmartcols1_2.41.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 perl-base arm64 5.40.1-7 [1528 kB] Fetched 1528 kB in 0s (111 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmsdw57io/perl-base_5.40.1-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxdmcp-dev arm64 1:1.1.5-2 [43.5 kB] Fetched 43.5 kB in 0s (2167 kB/s) dpkg-name: info: moved 'libxdmcp-dev_1%3a1.1.5-2_arm64.deb' to '/srv/rebuilderd/tmp/tmpzgyxmnzo/libxdmcp-dev_1.1.5-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libbz2-1.0 arm64 1.0.8-6 [37.8 kB] Fetched 37.8 kB in 0s (1895 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphbv818gz/libbz2-1.0_1.0.8-6_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 diffutils arm64 1:3.12-1 [397 kB] Fetched 397 kB in 0s (20.3 MB/s) dpkg-name: info: moved 'diffutils_1%3a3.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpfmlqaozf/diffutils_3.12-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libblkid-dev arm64 2.41.3-3 [212 kB] Fetched 212 kB in 0s (9378 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6o65kfq9/libblkid-dev_2.41.3-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libimagequant0 arm64 4.4.1-1 [218 kB] Fetched 218 kB in 0s (11.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuvcpwbe5/libimagequant0_4.4.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 postgresql-client-18 arm64 18.1-2 [2058 kB] Fetched 2058 kB in 0s (99.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6cmixi35/postgresql-client-18_18.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libio-pty-perl arm64 1:1.20-1+b3 [34.0 kB] Fetched 34.0 kB in 0s (1721 kB/s) dpkg-name: info: moved 'libio-pty-perl_1%3a1.20-1+b3_arm64.deb' to '/srv/rebuilderd/tmp/tmp018x9zbx/libio-pty-perl_1.20-1+b3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 pandoc arm64 3.1.11.1+ds-4 [26.2 MB] Fetched 26.2 MB in 0s (98.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcgii4bb3/pandoc_3.1.11.1+ds-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpotrace0 arm64 1.16-2+b2 [23.4 kB] Fetched 23.4 kB in 0s (1086 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_6mw_mje/libpotrace0_1.16-2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Fetched 62.8 kB in 0s (3086 kB/s) dpkg-name: info: moved 'libproc2-0_2%3a4.0.4-9_arm64.deb' to '/srv/rebuilderd/tmp/tmp6xa55s61/libproc2-0_4.0.4-9_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpango-1.0-0 arm64 1.57.0-1 [214 kB] Fetched 214 kB in 0s (10.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2hldf2vc/libpango-1.0-0_1.57.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfftw3-double3 arm64 3.3.10-2+b1 [337 kB] Fetched 337 kB in 0s (13.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyw99h_m3/libfftw3-double3_3.3.10-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libctf-nobfd0 arm64 2.45.50.20251209-1 [154 kB] Fetched 154 kB in 0s (9135 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphaobw1n2/libctf-nobfd0_2.45.50.20251209-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.11-1+b1 [1903 kB] Fetched 1903 kB in 0s (71.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkpg5zlqs/libpython3.13-stdlib_3.13.11-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.10-1 [420 kB] Fetched 420 kB in 0s (19.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppleohmz5/libp11-kit0_0.25.10-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libnghttp3-9 arm64 1.12.0-1 [63.6 kB] Fetched 63.6 kB in 0s (3211 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplque30fn/libnghttp3-9_1.12.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 debconf all 1.5.91 [121 kB] Fetched 121 kB in 0s (5382 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6z9a98l5/debconf_1.5.91_all.deb' Downloading dependency 379 of 505: libselinux1:arm64=3.9-4+b1 Downloading dependency 380 of 505: ca-certificates:arm64=20250419 Downloading dependency 381 of 505: libpython3.13:arm64=3.13.11-1+b1 Downloading dependency 382 of 505: 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debconf:arm64=1.5.91 Downloading dependency 505 of 505: libboost-iostreams1.83.0:arm64=1.83.0-5+b1Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-iostreams1.83.0 arm64 1.83.0-5+b1 [252 kB] Fetched 252 kB in 0s (13.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpznp232ci/libboost-iostreams1.83.0_1.83.0-5+b1_arm64.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-source --before-build . dpkg-buildpackage: info: host architecture arm64 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_arm64.buildinfo dpkg-genchanges --build=binary -O../debootsnap-dummy_1.0_arm64.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/tmphjq55llm/cache directory, not in ".." as indicated by the message above! I: automatically chosen mode: unshare I: chroot architecture arm64 is equal to the host's architecture I: using /srv/rebuilderd/tmp/mmdebstrap.yd84Fx_2ki as tempdir I: running --setup-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/setup00.sh /srv/rebuilderd/tmp/mmdebstrap.yd84Fx_2ki 127.0.0.1 - - [16/Jan/2026 04:38:14] code 404, message File not found 127.0.0.1 - - [16/Jan/2026 04:38:14] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:45633 ./ InRelease 127.0.0.1 - - [16/Jan/2026 04:38:14] "GET /./Release HTTP/1.1" 200 - Get:2 http://localhost:45633 ./ Release [462 B] 127.0.0.1 - - [16/Jan/2026 04:38:14] code 404, message File not found 127.0.0.1 - - [16/Jan/2026 04:38:14] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:45633 ./ Release.gpg 127.0.0.1 - - [16/Jan/2026 04:38:14] "GET /./Packages HTTP/1.1" 200 - Get:4 http://localhost:45633 ./ Packages [785 kB] Fetched 785 kB in 0s (21.0 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 - 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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.yd84Fx_2ki 127.0.0.1 - - [16/Jan/2026 04:38:19] code 404, message File not found 127.0.0.1 - - [16/Jan/2026 04:38:19] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:45633 ./ InRelease 127.0.0.1 - - [16/Jan/2026 04:38:19] "GET /./Release HTTP/1.1" 304 - Hit:2 http://localhost:45633 ./ Release 127.0.0.1 - - [16/Jan/2026 04:38:19] code 404, message File not found 127.0.0.1 - - [16/Jan/2026 04:38:19] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:45633 ./ 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.yd84Fx_2ki 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 - - [16/Jan/2026 04:38:29] "GET /./m4_1.4.20-2_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/Jan/2026 04:38:29] "GET /./flex_2.6.4-8.2%2bb4_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/Jan/2026 04:38:29] "GET /./libexpat1_2.7.3-1_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/Jan/2026 04:38:29] "GET /./libgomp1_15.2.0-12_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/Jan/2026 04:38:29] "GET /./libfftw3-double3_3.3.10-2%2bb1_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/Jan/2026 04:38:29] "GET /./libbrotli1_1.1.0-2%2bb9_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/Jan/2026 04:38:29] "GET /./libpng16-16t64_1.6.53-1_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/Jan/2026 04:38:29] "GET /./libfreetype6_2.14.1%2bdfsg-2_arm64.deb HTTP/1.1" 200 - 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Building dependency tree... Reading state information... libcrypt1 is already the newest version (1:4.5.1-1). imagemagick-7-common is already the newest version (8:7.1.2.12+dfsg1-1). imagemagick-7-common set to manually installed. libboost-regex1.83.0 is already the newest version (1.83.0-5+b1). libboost-regex1.83.0 set to manually installed. libboost-thread-dev is already the newest version (1.83.0.2+b2). libboost-thread-dev set to manually installed. libfontbox-java is already the newest version (1:1.8.16-5). libfontbox-java set to manually installed. libdb5.3t64 is already the newest version (5.3.28+dfsg2-11). gcc-15-base is already the newest version (15.2.0-12). libsframe2 is already the newest version (2.45.50.20251209-1). libsframe2 set to manually installed. libaom3 is already the newest version (3.13.1-2). libaom3 set to manually installed. libyaml-0-2 is already the newest version (0.2.5-2+b1). libyaml-0-2 set to manually installed. libpcre2-32-0 is already the newest version (10.46-1). libpcre2-32-0 set to manually installed. libxcb-render0 is already the newest version (1.17.0-2+b1). libxcb-render0 set to manually installed. libxt6t64 is already the newest version (1:1.2.1-1.3). libxt6t64 set to manually installed. g++-aarch64-linux-gnu is already the newest version (4:15.2.0-4). g++-aarch64-linux-gnu set to manually installed. bison is already the newest version (2:3.8.2+dfsg-1+b2). bison set to manually installed. python3-greenlet is already the newest version (3.2.4-3). python3-greenlet set to manually installed. libpcre2-8-0 is already the newest version (10.46-1). preview-latex-style is already the newest version (13.2-1.1). preview-latex-style set to manually installed. libboost-chrono1.83.0t64 is already the newest version (1.83.0-5+b1). libboost-chrono1.83.0t64 set to manually installed. liblsan0 is already the newest version (15.2.0-12). liblsan0 set to manually installed. libz3-4 is already the newest version (4.13.3-1). libz3-4 set to manually installed. pkgconf is already the newest version (1.8.1-4). pkgconf set to manually installed. libxcb1-dev is already the newest version (1.17.0-2+b1). libxcb1-dev set to manually installed. texlive-base is already the newest version (2025.20251127-1). texlive-base set to manually installed. gcc-aarch64-linux-gnu is already the newest version (4:15.2.0-4). gcc-aarch64-linux-gnu set to manually installed. libboost-iostreams1.83-dev is already the newest version (1.83.0-5+b1). libboost-iostreams1.83-dev set to manually installed. libjbig0 is already the newest version (2.1-6.1+b2). libjbig0 set to manually installed. libmagickwand-7.q16-10 is already the newest version (8:7.1.2.12+dfsg1-1). libmagickwand-7.q16-10 set to manually installed. xorg-sgml-doctools is already the newest version (1:1.11-1.1). xorg-sgml-doctools set to manually installed. libpython3-stdlib is already the newest version (3.13.9-3). libpython3-stdlib set to manually installed. adduser is already the newest version (3.154). adduser set to manually installed. python3-packaging is already the newest version (25.0-2). python3-packaging set to manually installed. libncurses-dev is already the newest version (6.6+20251231-1). libncurses-dev set to manually installed. libpcre2-dev is already the newest version (10.46-1). libpcre2-dev set to manually installed. llvm-21-runtime is already the newest version (1:21.1.8-1+b1). llvm-21-runtime set to manually installed. python3-mdit-py-plugins is already the newest version (0.5.0-1). python3-mdit-py-plugins set to manually installed. perl is already the newest version (5.40.1-7). perl set to manually installed. fonts-dejavu-core is already the newest version (2.37-8). fonts-dejavu-core set to manually installed. libheif-plugin-dav1d is already the newest version (1.20.2-2+b4). libheif-plugin-dav1d set to manually installed. libngtcp2-16 is already the newest version (1.16.0-1). libngtcp2-16 set to manually installed. libtext-charwidth-perl is already the newest version (0.04-11+b4). libtext-charwidth-perl set to manually installed. coreutils is already the newest version (9.7-3). python3-recommonmark is already the newest version (0.7.1+ds-8). python3-recommonmark set to manually installed. libclang-cpp21 is already the newest version (1:21.1.8-1+b1). libclang-cpp21 set to manually installed. postgresql-server-dev-all is already the newest version (287). postgresql-server-dev-all set to manually installed. rpcsvc-proto is already the newest version (1.4.3-1+b1). rpcsvc-proto set to manually installed. libgmp10 is already the newest version (2:6.3.0+dfsg-5). libzstd1 is already the newest version (1.5.7+dfsg-3). python3-pandas-lib is already the newest version (2.3.3+dfsg-3). python3-pandas-lib set to manually installed. libcairo-gobject2 is already the newest version (1.18.4-3). libcairo-gobject2 set to manually installed. libtinfo6 is already the newest version (6.6+20251231-1). libfontenc1 is already the newest version (1:1.1.8-1+b2). libfontenc1 set to manually installed. libuchardet0 is already the newest version (0.0.8-2). libuchardet0 set to manually installed. libselinux-dev is already the newest version (3.9-4+b1). libselinux-dev set to manually installed. libboost-atomic1.83-dev is already the newest version (1.83.0-5+b1). libboost-atomic1.83-dev set to manually installed. libboost-thread1.83-dev is already the newest version (1.83.0-5+b1). libboost-thread1.83-dev set to manually installed. libfile-stripnondeterminism-perl is already the newest version (1.15.0-1). libfile-stripnondeterminism-perl set to manually installed. python3-defusedxml is already the newest version (0.7.1-3). python3-defusedxml set to manually installed. util-linux is already the newest version (2.41.3-3). libboost-numpy1.83.0 is already the newest version (1.83.0-5+b1). libboost-numpy1.83.0 set to manually installed. make is already the newest version (4.4.1-3). make set to manually installed. libsvtav1enc2 is already the newest version (2.3.0+dfsg-1). libsvtav1enc2 set to manually installed. libclang-common-21-dev is already the newest version (1:21.1.8-1+b1). libclang-common-21-dev set to manually installed. girepository-tools is already the newest version (2.86.3-4). girepository-tools set to manually installed. libstdc++6 is already the newest version (15.2.0-12). libstdc++6 set to manually installed. libnghttp2-14 is already the newest version (1.64.0-1.1+b1). libnghttp2-14 set to manually installed. python3-requests is already the newest version (2.32.5+dfsg-1). python3-requests set to manually installed. cpp-15 is already the newest version (15.2.0-12). cpp-15 set to manually installed. libice-dev is already the newest version (2:1.1.1-1). libice-dev set to manually installed. libteckit0 is already the newest version (2.5.13+ds-1). libteckit0 set to manually installed. login.defs is already the newest version (1:4.19.0-4). login.defs set to manually installed. libyuv0 is already the newest version (0.0.1922.20260106-1). libyuv0 set to manually installed. libc-dev-bin is already the newest version (2.42-7). libc-dev-bin 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. libabsl20240722 is already the newest version (20240722.0-4). libabsl20240722 set to manually installed. libcoordgen-dev is already the newest version (3.0.2-3). libcoordgen-dev set to manually installed. rapidjson-dev is already the newest version (1.1.0+dfsg2-7.6). rapidjson-dev set to manually installed. libcommons-logging-java is already the newest version (1.3.0-2). libcommons-logging-java set to manually installed. tex-common is already the newest version (6.20). tex-common set to manually installed. libpdfbox-java is already the newest version (1:1.8.16-5). libpdfbox-java set to manually installed. libmd0 is already the newest version (1.1.0-2+b1). libllvm21 is already the newest version (1:21.1.8-1+b1). libllvm21 set to manually installed. libjs-sphinxdoc is already the newest version (8.2.3-12). libjs-sphinxdoc set to manually installed. debhelper is already the newest version (13.29). debhelper set to manually installed. libmpfi0 is already the newest version (1.5.4+ds-4). libmpfi0 set to manually installed. libmpfr6 is already the newest version (4.2.2-2). libmpfr6 set to manually installed. libgprofng0 is already the newest version (2.45.50.20251209-1). libgprofng0 set to manually installed. libxau6 is already the newest version (1:1.0.11-1). libxau6 set to manually installed. readline-common is already the newest version (8.3-3). readline-common set to manually installed. python3-sqlalchemy is already the newest version (2.0.45+ds1-1). python3-sqlalchemy set to manually installed. hostname is already the newest version (3.25). libraqm0 is already the newest version (0.10.3-1). libraqm0 set to manually installed. libpangoft2-1.0-0 is already the newest version (1.57.0-1). libpangoft2-1.0-0 set to manually installed. libfmt10 is already the newest version (10.1.1+ds1-4). libfmt10 set to manually installed. libacl1 is already the newest version (2.3.2-2+b1). libraw23t64 is already the newest version (0.21.5b-1). libraw23t64 set to manually installed. librhash1 is already the newest version (1.4.6-1.1). librhash1 set to manually installed. libboost-program-options1.83-dev is already the newest version (1.83.0-5+b1). libboost-program-options1.83-dev set to manually installed. sed is already the newest version (4.9-2+b1). libeigen3-dev is already the newest version (3.4.0-5). libeigen3-dev set to manually installed. libcap2 is already the newest version (1:2.75-10+b5). pandoc-data is already the newest version (3.1.11.1-3). pandoc-data set to manually installed. libreadline8t64 is already the newest version (8.3-3). libreadline8t64 set to manually installed. librsvg2-bin is already the newest version (2.61.3+dfsg-3). librsvg2-bin set to manually installed. libtool is already the newest version (2.5.4-9). libtool set to manually installed. python3-imagesize is already the newest version (1.4.1-1). python3-imagesize set to manually installed. libpam-modules is already the newest version (1.7.0-5). t1utils is already the newest version (1.41-4+b1). t1utils set to manually installed. libxxhash0 is already the newest version (0.8.3-2). libxxhash0 set to manually installed. libcap-ng0 is already the newest version (0.8.5-4+b2). libmpc3 is already the newest version (1.3.1-2). libmpc3 set to manually installed. libdpkg-perl is already the newest version (1.23.3). libdpkg-perl set to manually installed. libtasn1-6 is already the newest version (4.20.0-2). libtasn1-6 set to manually installed. libsystemd0 is already the newest version (259-1). python3-roman-numerals is already the newest version (4.1.0-1). python3-roman-numerals set to manually installed. librav1e0.8 is already the newest version (0.8.1-7). librav1e0.8 set to manually installed. python3-idna is already the newest version (3.10-1). python3-idna set to manually installed. libarchive13t64 is already the newest version (3.8.5-1). libarchive13t64 set to manually installed. xtrans-dev is already the newest version (1.6.0-1). xtrans-dev set to manually installed. icu-devtools is already the newest version (76.1-4). icu-devtools set to manually installed. python3-alabaster is already the newest version (0.7.16-0.1). python3-alabaster set to manually installed. libxcb-shm0 is already the newest version (1.17.0-2+b1). libxcb-shm0 set to manually installed. tzdata is already the newest version (2025c-3). tzdata set to manually installed. dash is already the newest version (0.5.12-12). grep is already the newest version (3.12-1). libaudit1 is already the newest version (1:4.1.2-1+b1). libgio-2.0-dev-bin is already the newest version (2.86.3-4). libgio-2.0-dev-bin set to manually installed. libboost-numpy-dev is already the newest version (1.83.0.2+b2). libboost-numpy-dev set to manually installed. libobjc4 is already the newest version (15.2.0-12). libobjc4 set to manually installed. autotools-dev is already the newest version (20240727.1). autotools-dev set to manually installed. llvm-21-dev is already the newest version (1:21.1.8-1+b1). llvm-21-dev set to manually installed. libsqlite3-0 is already the newest version (3.46.1-8). libsqlite3-0 set to manually installed. doxygen is already the newest version (1.15.0+ds1-1+b1). doxygen set to manually installed. fonts-dejavu-mono is already the newest version (2.37-8). fonts-dejavu-mono set to manually installed. mawk is already the newest version (1.3.4.20250131-2). openssl is already the newest version (3.5.4-1). openssl set to manually installed. libdeflate0 is already the newest version (1.23-2). libdeflate0 set to manually installed. libpcre2-posix3 is already the newest version (10.46-1). libpcre2-posix3 set to manually installed. zlib1g is already the newest version (1:1.3.dfsg+really1.3.1-1+b2). libboost-program-options1.83.0 is already the newest version (1.83.0-5+b1). libboost-program-options1.83.0 set to manually installed. libzzip-0-13t64 is already the newest version (0.13.78+dfsg.1-0.2). libzzip-0-13t64 set to manually installed. libngtcp2-crypto-ossl0 is already the newest version (1.16.0-1). libngtcp2-crypto-ossl0 set to manually installed. libgnutls30t64 is already the newest version (3.8.11-3). libgnutls30t64 set to manually installed. libdatrie1 is already the newest version (0.2.14-1). libdatrie1 set to manually installed. python3-mdurl is already the newest version (0.1.2-1). python3-mdurl set to manually installed. libmount1 is already the newest version (2.41.3-3). libmagickcore-7.q16-10 is already the newest version (8:7.1.2.12+dfsg1-1). libmagickcore-7.q16-10 set to manually installed. media-types is already the newest version (14.0.0). media-types set to manually installed. libpsl5t64 is already the newest version (0.21.2-1.1+b1). libpsl5t64 set to manually installed. libjansson4 is already the newest version (2.14-2+b4). libjansson4 set to manually installed. libde265-0 is already the newest version (1.0.16-1+b1). libde265-0 set to manually installed. libsemanage2 is already the newest version (3.9-1+b1). libsemanage2 set to manually installed. postgresql-client-common is already the newest version (287). postgresql-client-common set to manually installed. libgav1-2 is already the newest version (0.20.0-2). libgav1-2 set to manually installed. libsharpyuv0 is already the newest version (1.5.0-0.1). libsharpyuv0 set to manually installed. libsm6 is already the newest version (2:1.2.6-1). libsm6 set to manually installed. libboost-program-options-dev is already the newest version (1.83.0.2+b2). libboost-program-options-dev set to manually installed. libmaeparser1 is already the newest version (1.3.3-3). libmaeparser1 set to manually installed. libssl-dev is already the newest version (3.5.4-1). libssl-dev set to manually installed. libthai0 is already the newest version (0.1.30-1). libthai0 set to manually installed. python3-snowballstemmer is already the newest version (3.0.1-1). python3-snowballstemmer set to manually installed. imagemagick-7.q16 is already the newest version (8:7.1.2.12+dfsg1-1). imagemagick-7.q16 set to manually installed. base-passwd is already the newest version (3.6.8). libipc-run-perl is already the newest version (20250809.0-1). libipc-run-perl set to manually installed. liblapack3 is already the newest version (3.12.1-7). liblapack3 set to manually installed. libgio-2.0-dev is already the newest version (2.86.3-4). libgio-2.0-dev set to manually installed. python3.13-minimal is already the newest version (3.13.11-1+b1). python3.13-minimal set to manually installed. gcc-15 is already the newest version (15.2.0-12). gcc-15 set to manually installed. libattr1 is already the newest version (1:2.5.2-3). gettext is already the newest version (0.23.2-1). gettext set to manually installed. libboost-regex1.83-dev is already the newest version (1.83.0-5+b1). libboost-regex1.83-dev set to manually installed. imagemagick is already the newest version (8:7.1.2.12+dfsg1-1). imagemagick set to manually installed. python3-pandas is already the newest version (2.3.3+dfsg-3). python3-pandas set to manually installed. sphinx-common is already the newest version (8.2.3-12). sphinx-common set to manually installed. libxpm4 is already the newest version (1:3.5.17-1+b3). libxpm4 set to manually installed. libjson-perl is already the newest version (4.10000-1). libjson-perl set to manually installed. libfontconfig1 is already the newest version (2.17.1-3). libfontconfig1 set to manually installed. libmount-dev is already the newest version (2.41.3-3). libmount-dev set to manually installed. libbinutils is already the newest version (2.45.50.20251209-1). libbinutils set to manually installed. libkrb5-3 is already the newest version (1.22.1-2). libkrb5-3 set to manually installed. xfonts-encodings is already the newest version (1:1.0.4-2.2). xfonts-encodings set to manually installed. libseccomp2 is already the newest version (2.6.0-2+b1). libseccomp2 set to manually installed. libboost-iostreams-dev is already the newest version (1.83.0.2+b2). libboost-iostreams-dev set to manually installed. libedit2 is already the newest version (3.1-20251016-1). libedit2 set to manually installed. liblerc4 is already the newest version (4.0.0+ds-5). liblerc4 set to manually installed. libc6 is already the newest version (2.42-7). libc-bin is already the newest version (2.42-7). xml-core is already the newest version (0.19). xml-core set to manually installed. libpcre2-16-0 is already the newest version (10.46-1). libpcre2-16-0 set to manually installed. libffi-dev is already the newest version (3.5.2-3). libffi-dev set to manually installed. sensible-utils is already the newest version (0.0.26). sensible-utils set to manually installed. libglib2.0-0t64 is already the newest version (2.86.3-4). libglib2.0-0t64 set to manually installed. libx11-data is already the newest version (2:1.8.12-1). libx11-data set to manually installed. patch is already the newest version (2.8-2). patch set to manually installed. llvm-21-tools is already the newest version (1:21.1.8-1+b1). llvm-21-tools set to manually installed. netbase is already the newest version (6.5). netbase set to manually installed. llvm-21 is already the newest version (1:21.1.8-1+b1). llvm-21 set to manually installed. libboost-date-time1.83.0 is already the newest version (1.83.0-5+b1). libboost-date-time1.83.0 set to manually installed. python3-dev is already the newest version (3.13.9-3). python3-dev set to manually installed. libptexenc1 is already the newest version (2025.20250727.75242+ds-5). libptexenc1 set to manually installed. libc6-dev is already the newest version (2.42-7). libc6-dev set to manually installed. sysvinit-utils is already the newest version (3.15-6). libidn2-0 is already the newest version (2.3.8-4). libidn2-0 set to manually installed. libpaper-utils is already the newest version (2.2.5-0.3+b3). libpaper-utils set to manually installed. libxapian30 is already the newest version (1.4.29-3). libxapian30 set to manually installed. libsasl2-modules-db is already the newest version (2.1.28+dfsg1-10). libsasl2-modules-db set to manually installed. fontconfig-config is already the newest version (2.17.1-3). fontconfig-config set to manually installed. libz3-dev is already the newest version (4.13.3-1). libz3-dev set to manually installed. python3-typing-extensions is already the newest version (4.15.0-2). python3-typing-extensions set to manually installed. linux-libc-dev is already the newest version (6.18.3-1). linux-libc-dev set to manually installed. libxcb-render0-dev is already the newest version (1.17.0-2+b1). libxcb-render0-dev set to manually installed. python3 is already the newest version (3.13.9-3). python3 set to manually installed. libdebconfclient0 is already the newest version (0.282+b2). libaudit-common is already the newest version (1:4.1.2-1). build-essential is already the newest version (12.12). build-essential set to manually installed. libblas3 is already the newest version (3.12.1-7). libblas3 set to manually installed. libboost-serialization1.83-dev is already the newest version (1.83.0-5+b1). libboost-serialization1.83-dev set to manually installed. x11proto-dev is already the newest version (2024.1-1). x11proto-dev set to manually installed. libgfortran5 is already the newest version (15.2.0-12). libgfortran5 set to manually installed. texlive-pictures is already the newest version (2025.20251127-1). texlive-pictures set to manually installed. libldap2 is already the newest version (2.6.10+dfsg-1). libldap2 set to manually installed. libobjc-15-dev is already the newest version (15.2.0-12). libobjc-15-dev set to manually installed. xdg-utils is already the newest version (1.2.1-2). xdg-utils set to manually installed. libboost-dev is already the newest version (1.83.0.2+b2). libboost-dev set to manually installed. libavif16 is already the newest version (1.3.0-1+b2). libavif16 set to manually installed. python3-pygments is already the newest version (2.19.2+dfsg-1). python3-pygments set to manually installed. texlive-luatex is already the newest version (2025.20251127-1). texlive-luatex set to manually installed. cpp-15-aarch64-linux-gnu is already the newest version (15.2.0-12). cpp-15-aarch64-linux-gnu set to manually installed. libfontconfig-dev is already the newest version (2.17.1-3). libfontconfig-dev set to manually installed. libc-gconv-modules-extra is already the newest version (2.42-7). liblqr-1-0 is already the newest version (0.4.2-2.2). liblqr-1-0 set to manually installed. python3-pytz is already the newest version (2025.2-5). python3-pytz set to manually installed. findutils is already the newest version (4.10.0-3). tex-gyre is already the newest version (20180621-7). tex-gyre set to manually installed. po-debconf is already the newest version (1.0.22). po-debconf set to manually installed. ssl-cert is already the newest version (1.1.3). ssl-cert set to manually installed. libxcb1 is already the newest version (1.17.0-2+b1). libxcb1 set to manually installed. dh-python is already the newest version (7.20251231). dh-python set to manually installed. libasan8 is already the newest version (15.2.0-12). libasan8 set to manually installed. libunistring5 is already the newest version (1.3-2). libunistring5 set to manually installed. libxmu6 is already the newest version (2:1.1.3-4). libxmu6 set to manually installed. librtmp1 is already the newest version (2.4+20151223.gitfa8646d.1-3). librtmp1 set to manually installed. python3-docutils is already the newest version (0.22.4+dfsg-1). python3-docutils set to manually installed. libelf1t64 is already the newest version (0.194-1). libelf1t64 set to manually installed. xfonts-utils is already the newest version (1:7.7+7). xfonts-utils set to manually installed. libglib2.0-dev-bin is already the newest version (2.86.3-4). libglib2.0-dev-bin set to manually installed. libsynctex2 is already the newest version (2025.20250727.75242+ds-5). libsynctex2 set to manually installed. libxcb-shm0-dev is already the newest version (1.17.0-2+b1). libxcb-shm0-dev set to manually installed. libncursesw6 is already the newest version (6.6+20251231-1). libncursesw6 set to manually installed. libboost-chrono1.83-dev is already the newest version (1.83.0-5+b1). libboost-chrono1.83-dev set to manually installed. uuid-dev is already the newest version (2.41.3-3). uuid-dev set to manually installed. python3-uc-micro is already the newest version (1.0.3-1). python3-uc-micro set to manually installed. libspdlog1.15 is already the newest version (1:1.15.3+ds-1). libspdlog1.15 set to manually installed. libsepol-dev is already the newest version (3.9-2). libsepol-dev set to manually installed. libexpat1 is already the newest version (2.7.3-1). libexpat1 set to manually installed. libopenjp2-7 is already the newest version (2.5.4-1). libopenjp2-7 set to manually installed. libk5crypto3 is already the newest version (1.22.1-2). libk5crypto3 set to manually installed. libpng16-16t64 is already the newest version (1.6.53-1). libpng16-16t64 set to manually installed. python3-charset-normalizer is already the newest version (3.4.4-2). python3-charset-normalizer set to manually installed. libatomic1 is already the newest version (15.2.0-12). libatomic1 set to manually installed. lmodern is already the newest version (2.005-1). lmodern set to manually installed. libsemanage-common is already the newest version (3.9-1). libsemanage-common set to manually installed. libboost-date-time1.83-dev is already the newest version (1.83.0-5+b1). libboost-date-time1.83-dev set to manually installed. libgomp1 is already the newest version (15.2.0-12). libgomp1 set to manually installed. texlive-latex-recommended is already the newest version (2025.20251127-1). texlive-latex-recommended set to manually installed. python3-markupsafe is already the newest version (3.0.3-1+b1). python3-markupsafe set to manually installed. libthai-data is already the newest version (0.1.30-1). libthai-data set to manually installed. python3-pluggy is already the newest version (1.6.0-2). python3-pluggy set to manually installed. libgssapi-krb5-2 is already the newest version (1.22.1-2). libgssapi-krb5-2 set to manually installed. python3-numpy is already the newest version (1:2.3.5+ds-3). python3-numpy set to manually installed. libboost-system1.83-dev is already the newest version (1.83.0-5+b1). libboost-system1.83-dev set to manually installed. libboost-python-dev is already the newest version (1.83.0.2+b2). libboost-python-dev set to manually installed. shared-mime-info is already the newest version (2.4-5+b3). shared-mime-info set to manually installed. libsasl2-2 is already the newest version (2.1.28+dfsg1-10). libsasl2-2 set to manually installed. llvm-21-linker-tools is already the newest version (1:21.1.8-1+b1). llvm-21-linker-tools set to manually installed. libcom-err2 is already the newest version (1.47.2-3+b8). libcom-err2 set to manually installed. libdav1d7 is already the newest version (1.5.3-1). libdav1d7 set to manually installed. python3-yaml is already the newest version (6.0.3-1). python3-yaml set to manually installed. hicolor-icon-theme is already the newest version (0.18-2). hicolor-icon-theme set to manually installed. texlive-binaries is already the newest version (2025.20250727.75242+ds-5). texlive-binaries set to manually installed. libwebpmux3 is already the newest version (1.5.0-0.1). libwebpmux3 set to manually installed. cpp is already the newest version (4:15.2.0-4). cpp set to manually installed. libharfbuzz0b is already the newest version (12.3.0-4). libharfbuzz0b set to manually installed. libpam0g is already the newest version (1.7.0-5). libkeyutils1 is already the newest version (1.6.3-6). libkeyutils1 set to manually installed. zlib1g-dev is already the newest version (1:1.3.dfsg+really1.3.1-1+b2). zlib1g-dev set to manually installed. libcommons-parent-java is already the newest version (56-1). libcommons-parent-java set to manually installed. python3.13 is already the newest version (3.13.11-1+b1). python3.13 set to manually installed. libgdbm-compat4t64 is already the newest version (1.26-1). libgdbm-compat4t64 set to manually installed. libtexlua53-5 is already the newest version (2025.20250727.75242+ds-5). libtexlua53-5 set to manually installed. libgc1 is already the newest version (1:8.2.10-1). libgc1 set to manually installed. procps is already the newest version (2:4.0.4-9). procps set to manually installed. libstdc++-15-dev is already the newest version (15.2.0-12). libstdc++-15-dev set to manually installed. python-babel-localedata is already the newest version (2.17.0-2). python-babel-localedata set to manually installed. liblcms2-2 is already the newest version (2.17-1). liblcms2-2 set to manually installed. libxext-dev is already the newest version (2:1.3.4-1+b3). libxext-dev set to manually installed. python3-pil is already the newest version (12.0.0-1+b1). python3-pil set to manually installed. libgdk-pixbuf2.0-common is already the newest version (2.44.4+dfsg-1). libgdk-pixbuf2.0-common set to manually installed. libffi8 is already the newest version (3.5.2-3). libffi8 set to manually installed. libgcc-s1 is already the newest version (15.2.0-12). python3-numpy-dev is already the newest version (1:2.3.5+ds-3). python3-numpy-dev set to manually installed. libpangocairo-1.0-0 is already the newest version (1.57.0-1). libpangocairo-1.0-0 set to manually installed. python3-certifi is already the newest version (2026.1.4+ds-1). python3-certifi set to manually installed. gcc is already the newest version (4:15.2.0-4). gcc set to manually installed. python3-commonmark is already the newest version (0.9.1-8). python3-commonmark set to manually installed. gcc-15-aarch64-linux-gnu is already the newest version (15.2.0-12). gcc-15-aarch64-linux-gnu set to manually installed. libuuid1 is already the newest version (2.41.3-3). libx11-dev is already the newest version (2:1.8.12-1). libx11-dev set to manually installed. cmake-data is already the newest version (4.2.1-2). cmake-data set to manually installed. libdebhelper-perl is already the newest version (13.29). libdebhelper-perl set to manually installed. libssl3t64 is already the newest version (3.5.4-1). gzip is already the newest version (1.13-1). liblzma-dev is already the newest version (5.8.2-1). liblzma-dev set to manually installed. texlive-fonts-recommended is already the newest version (2025.20251127-1). texlive-fonts-recommended set to manually installed. texlive-latex-extra is already the newest version (2025.20251127-2). texlive-latex-extra set to manually installed. dwz is already the newest version (0.16-2). dwz set to manually installed. libcc1-0 is already the newest version (15.2.0-12). libcc1-0 set to manually installed. libx11-6 is already the newest version (2:1.8.12-1). libx11-6 set to manually installed. automake is already the newest version (1:1.18.1-3). automake set to manually installed. libxi6 is already the newest version (2:1.8.2-2). libxi6 set to manually installed. pkgconf-bin is already the newest version (1.8.1-4). pkgconf-bin set to manually installed. postgresql-server-dev-18 is already the newest version (18.1-2). postgresql-server-dev-18 set to manually installed. libtiff6 is already the newest version (4.7.1-1). libtiff6 set to manually installed. fontconfig is already the newest version (2.17.1-3). fontconfig set to manually installed. libudev1 is already the newest version (259-1). libctf0 is already the newest version (2.45.50.20251209-1). libctf0 set to manually installed. libice6 is already the newest version (2:1.1.1-1). libice6 set to manually installed. binutils-aarch64-linux-gnu is already the newest version (2.45.50.20251209-1). binutils-aarch64-linux-gnu set to manually installed. libpython3-dev is already the newest version (3.13.9-3). libpython3-dev set to manually installed. libpixman-1-dev is already the newest version (0.46.4-1). libpixman-1-dev set to manually installed. libpixman-1-0 is already the newest version (0.46.4-1). libpixman-1-0 set to manually installed. fonts-lmodern is already the newest version (2.005-1). fonts-lmodern set to manually installed. init-system-helpers is already the newest version (1.69). librsvg2-2 is already the newest version (2.61.3+dfsg-3). librsvg2-2 set to manually installed. liblz4-1 is already the newest version (1.10.0-6). liblz4-1 set to manually installed. python3-pytest is already the newest version (9.0.2-2). python3-pytest set to manually installed. docutils-common is already the newest version (0.22.4+dfsg-1). docutils-common set to manually installed. libicu76 is already the newest version (76.1-4). libicu76 set to manually installed. libpam-runtime is already the newest version (1.7.0-5). libsepol2 is already the newest version (3.9-2). libsepol2 set to manually installed. liblua5.4-0 is already the newest version (5.4.8-1). liblua5.4-0 set to manually installed. bsdextrautils is already the newest version (2.41.3-3). bsdextrautils set to manually installed. libcairo2-dev is already the newest version (1.18.4-3). libcairo2-dev set to manually installed. libcoordgen3 is already the newest version (3.0.2-3). libcoordgen3 set to manually installed. native-architecture is already the newest version (0.2.6). native-architecture set to manually installed. libncurses6 is already the newest version (6.6+20251231-1). libncurses6 set to manually installed. g++-15 is already the newest version (15.2.0-12). g++-15 set to manually installed. libboost-system-dev is already the newest version (1.83.0.2+b2). libboost-system-dev set to manually installed. libinchi1.07 is already the newest version (1.07.3+dfsg-1). libinchi1.07 set to manually installed. libheif-plugin-libde265 is already the newest version (1.20.2-2+b4). libheif-plugin-libde265 set to manually installed. libcairo2 is already the newest version (1.18.4-3). libcairo2 set to manually installed. python3-markdown-it is already the newest version (3.0.0-3). python3-markdown-it set to manually installed. libitm1 is already the newest version (15.2.0-12). libitm1 set to manually installed. libpkgconf3 is already the newest version (1.8.1-4). libpkgconf3 set to manually installed. postgresql-common is already the newest version (287). postgresql-common set to manually installed. cpp-aarch64-linux-gnu is already the newest version (4:15.2.0-4). cpp-aarch64-linux-gnu set to manually installed. libboost-python1.83.0 is already the newest version (1.83.0-5+b1). libboost-python1.83.0 set to manually installed. autoconf is already the newest version (2.72-3.1). autoconf set to manually installed. libmagic1t64 is already the newest version (1:5.46-5). libmagic1t64 set to manually installed. autopoint is already the newest version (0.23.2-1). autopoint set to manually installed. libjpeg62-turbo is already the newest version (1:2.1.5-4). libjpeg62-turbo set to manually installed. libbsd0 is already the newest version (0.12.2-2). libbsd0 set to manually installed. libbz2-dev is already the newest version (1.0.8-6). libbz2-dev set to manually installed. libxrender1 is already the newest version (1:0.9.12-1). libxrender1 set to manually installed. file is already the newest version (1:5.46-5). file set to manually installed. libkrb5support0 is already the newest version (1.22.1-2). libkrb5support0 set to manually installed. binutils-common is already the newest version (2.45.50.20251209-1). binutils-common set to manually installed. gettext-base is already the newest version (0.23.2-1). gettext-base set to manually installed. groff-base is already the newest version (1.23.0-10). groff-base set to manually installed. libbrotli-dev is already the newest version (1.1.0-2+b9). libbrotli-dev set to manually installed. xz-utils is already the newest version (5.8.2-1). xz-utils set to manually installed. libxml2-16 is already the newest version (2.15.1+dfsg-2+b1). libxml2-16 set to manually installed. ncurses-bin is already the newest version (6.6+20251231-1). dpkg-dev is already the newest version (1.23.3). dpkg-dev set to manually installed. libarchive-zip-perl is already the newest version (1.68-1). libarchive-zip-perl set to manually installed. python3-chardet is already the newest version (5.2.0+dfsg-2). python3-chardet set to manually installed. libxaw7 is already the newest version (2:1.0.16-1). libxaw7 set to manually installed. libpam-modules-bin is already the newest version (1.7.0-5). libselinux1 is already the newest version (3.9-4+b1). ca-certificates is already the newest version (20250419). ca-certificates set to manually installed. libpython3.13 is already the newest version (3.13.11-1+b1). libpython3.13 set to manually installed. libboost-system1.83.0 is already the newest version (1.83.0-5+b1). libboost-system1.83.0 set to manually installed. libclang1-21 is already the newest version (1:21.1.8-1+b1). libclang1-21 set to manually installed. passwd is already the newest version (1:4.19.0-4). passwd set to manually installed. libgcc-15-dev is already the newest version (15.2.0-12). libgcc-15-dev set to manually installed. libexpat1-dev is already the newest version (2.7.3-1). libexpat1-dev set to manually installed. tar is already the newest version (1.35+dfsg-3.1). libuv1t64 is already the newest version (1.51.0-2). libuv1t64 set to manually installed. architecture-properties is already the newest version (0.2.6). architecture-properties set to manually installed. catch2 is already the newest version (3.7.1-0.6). catch2 set to manually installed. python3.13-dev is already the newest version (3.13.11-1+b1). python3.13-dev set to manually installed. liblzo2-2 is already the newest version (2.10-3+b1). liblzo2-2 set to manually installed. libboost-python1.83-dev is already the newest version (1.83.0-5+b1). libboost-python1.83-dev set to manually installed. libubsan1 is already the newest version (15.2.0-12). libubsan1 set to manually installed. libxext6 is already the newest version (2:1.3.4-1+b3). libxext6 set to manually installed. intltool-debian is already the newest version (0.35.0+20060710.6). intltool-debian set to manually installed. g++ is already the newest version (4:15.2.0-4). g++ set to manually installed. libltdl7 is already the newest version (2.5.4-9). libltdl7 set to manually installed. libxml2-dev is already the newest version (2.15.1+dfsg-2+b1). libxml2-dev set to manually installed. ncurses-base is already the newest version (6.6+20251231-1). libpython3.13-minimal is already the newest version (3.13.11-1+b1). libpython3.13-minimal set to manually installed. libsm-dev is already the newest version (2:1.2.6-1). libsm-dev set to manually installed. x11-common is already the newest version (1:7.7+26). x11-common set to manually installed. libnuma1 is already the newest version (2.0.19-1). libnuma1 set to manually installed. libpipeline1 is already the newest version (1.5.8-2). libpipeline1 set to manually installed. libboost-regex-dev is already the newest version (1.83.0.2+b2). libboost-regex-dev set to manually installed. binutils is already the newest version (2.45.50.20251209-1). binutils set to manually installed. man-db is already the newest version (2.13.1-1). man-db set to manually installed. python3-babel is already the newest version (2.17.0-2). python3-babel set to manually installed. sgml-base is already the newest version (1.31+nmu1). sgml-base set to manually installed. libboost-serialization1.83.0 is already the newest version (1.83.0-5+b1). libboost-serialization1.83.0 set to manually installed. libpython3.13-dev is already the newest version (3.13.11-1+b1). libpython3.13-dev set to manually installed. libsysprof-capture-4-dev is already the newest version (49.0-5). libsysprof-capture-4-dev set to manually installed. libheif1 is already the newest version (1.20.2-2+b4). libheif1 set to manually installed. libfribidi0 is already the newest version (1.0.16-5). libfribidi0 set to manually installed. libhogweed6t64 is already the newest version (3.10.2-1). libhogweed6t64 set to manually installed. libssh2-1t64 is already the newest version (1.11.1-1). libssh2-1t64 set to manually installed. flex is already the newest version (2.6.4-8.2+b4). flex set to manually installed. python3-sphinx is already the newest version (8.2.3-12). python3-sphinx set to manually installed. libtext-wrapi18n-perl is already the newest version (0.06-10). libtext-wrapi18n-perl set to manually installed. libgraphite2-3 is already the newest version (1.3.14-11). libgraphite2-3 set to manually installed. libhwasan0 is already the newest version (15.2.0-12). libhwasan0 set to manually installed. python3-myst-parser is already the newest version (4.0.1-1). python3-myst-parser set to manually installed. libnettle8t64 is already the newest version (3.10.2-1). libnettle8t64 set to manually installed. libpq5 is already the newest version (18.1-2). libpq5 set to manually installed. clang-21 is already the newest version (1:21.1.8-1+b1). clang-21 set to manually installed. libblkid1 is already the newest version (2.41.3-3). libkpathsea6 is already the newest version (2025.20250727.75242+ds-5). libkpathsea6 set to manually installed. libglib2.0-bin is already the newest version (2.86.3-4). libglib2.0-bin set to manually installed. libicu-dev is already the newest version (76.1-4). libicu-dev set to manually installed. libboost-atomic1.83.0 is already the newest version (1.83.0-5+b1). libboost-atomic1.83.0 set to manually installed. libgirepository-2.0-0 is already the newest version (2.86.3-4). libgirepository-2.0-0 set to manually installed. latexmk is already the newest version (1:4.87~ds-1). latexmk set to manually installed. libbrotli1 is already the newest version (1.1.0-2+b9). libbrotli1 set to manually installed. g++-15-aarch64-linux-gnu is already the newest version (15.2.0-12). g++-15-aarch64-linux-gnu set to manually installed. libmagic-mgc is already the newest version (1:5.46-5). libmagic-mgc set to manually installed. libfreetype-dev is already the newest version (2.14.1+dfsg-2). libfreetype-dev set to manually installed. libxdmcp6 is already the newest version (1:1.1.5-2). libxdmcp6 set to manually installed. bash is already the newest version (5.3-1). libsqlite3-dev is already the newest version (3.46.1-8). libsqlite3-dev set to manually installed. python3-minimal is already the newest version (3.13.9-3). python3-minimal set to manually installed. m4 is already the newest version (1.4.20-2). m4 set to manually installed. libwebp7 is already the newest version (1.5.0-0.1). libwebp7 set to manually installed. libboost-thread1.83.0 is already the newest version (1.83.0-5+b1). libboost-thread1.83.0 set to manually installed. python3-iniconfig is already the newest version (2.1.0-2). python3-iniconfig set to manually installed. python3-jinja2 is already the newest version (3.1.6-1). python3-jinja2 set to manually installed. cmake is already the newest version (4.2.1-2). cmake set to manually installed. libgdbm6t64 is already the newest version (1.26-1). libgdbm6t64 set to manually installed. libboost-numpy1.83-dev is already the newest version (1.83.0-5+b1). libboost-numpy1.83-dev set to manually installed. libgdk-pixbuf-2.0-0 is already the newest version (2.44.4+dfsg-1). libgdk-pixbuf-2.0-0 set to manually installed. libpng-dev is already the newest version (1.6.53-1). libpng-dev set to manually installed. libapache-pom-java is already the newest version (33-2). libapache-pom-java set to manually installed. libpq-dev is already the newest version (18.1-2). libpq-dev set to manually installed. postgresql-common-dev is already the newest version (287). postgresql-common-dev set to manually installed. libglib2.0-dev is already the newest version (2.86.3-4). libglib2.0-dev set to manually installed. libperl5.40 is already the newest version (5.40.1-7). libperl5.40 set to manually installed. python3-dateutil is already the newest version (2.9.0-4). python3-dateutil set to manually installed. libglib2.0-data is already the newest version (2.86.3-4). libglib2.0-data set to manually installed. libcatch2-dev is already the newest version (3.7.1-0.6). libcatch2-dev set to manually installed. liblzma5 is already the newest version (5.8.2-1). libpaper2 is already the newest version (2.2.5-0.3+b3). libpaper2 set to manually installed. libwebpdemux2 is already the newest version (1.5.0-0.1). libwebpdemux2 set to manually installed. base-files is already the newest version (14). python3-linkify-it is already the newest version (2.0.3-1). python3-linkify-it set to manually installed. libboost1.83-dev is already the newest version (1.83.0-5+b1). libboost1.83-dev set to manually installed. libcairo-script-interpreter2 is already the newest version (1.18.4-3). libcairo-script-interpreter2 set to manually installed. libisl23 is already the newest version (0.27-1). libisl23 set to manually installed. dpkg is already the newest version (1.23.3). libxau-dev is already the newest version (1:1.0.11-1). libxau-dev set to manually installed. dh-autoreconf is already the newest version (21). dh-autoreconf set to manually installed. dh-strip-nondeterminism is already the newest version (1.15.0-1). dh-strip-nondeterminism set to manually installed. libtsan2 is already the newest version (15.2.0-12). libtsan2 set to manually installed. libmaeparser-dev is already the newest version (1.3.3-3). libmaeparser-dev set to manually installed. debianutils is already the newest version (5.23.2). texlive-latex-base is already the newest version (2025.20251127-1). texlive-latex-base set to manually installed. libcurl4t64 is already the newest version (8.18.0-1). libcurl4t64 set to manually installed. libfreetype6 is already the newest version (2.14.1+dfsg-2). libfreetype6 set to manually installed. libpfm4 is already the newest version (4.13.0+git106-g3e4031b-1). libpfm4 set to manually installed. libjsoncpp26 is already the newest version (1.9.6-5). libjsoncpp26 set to manually installed. libxrender-dev is already the newest version (1:0.9.12-1). libxrender-dev set to manually installed. openssl-provider-legacy is already the newest version (3.5.4-1). python3-urllib3 is already the newest version (2.5.0-1.1). python3-urllib3 set to manually installed. ucf is already the newest version (3.0052). ucf set to manually installed. libinchi-dev is already the newest version (1.07.3+dfsg-1). libinchi-dev set to manually installed. bzip2 is already the newest version (1.0.8-6). bzip2 set to manually installed. libsmartcols1 is already the newest version (2.41.3-3). perl-base is already the newest version (5.40.1-7). libxdmcp-dev is already the newest version (1:1.1.5-2). libxdmcp-dev set to manually installed. libbz2-1.0 is already the newest version (1.0.8-6). diffutils is already the newest version (1:3.12-1). libblkid-dev is already the newest version (2.41.3-3). libblkid-dev set to manually installed. libimagequant0 is already the newest version (4.4.1-1). libimagequant0 set to manually installed. postgresql-client-18 is already the newest version (18.1-2). postgresql-client-18 set to manually installed. libio-pty-perl is already the newest version (1:1.20-1+b3). libio-pty-perl set to manually installed. pandoc is already the newest version (3.1.11.1+ds-4). pandoc set to manually installed. libpotrace0 is already the newest version (1.16-2+b2). libpotrace0 set to manually installed. libproc2-0 is already the newest version (2:4.0.4-9). libproc2-0 set to manually installed. libpango-1.0-0 is already the newest version (1.57.0-1). libpango-1.0-0 set to manually installed. libfftw3-double3 is already the newest version (3.3.10-2+b1). libfftw3-double3 set to manually installed. libctf-nobfd0 is already the newest version (2.45.50.20251209-1). libctf-nobfd0 set to manually installed. libpython3.13-stdlib is already the newest version (3.13.11-1+b1). libpython3.13-stdlib set to manually installed. libp11-kit0 is already the newest version (0.25.10-1). libp11-kit0 set to manually installed. libnghttp3-9 is already the newest version (1.12.0-1). libnghttp3-9 set to manually installed. debconf is already the newest version (1.5.91). libboost-iostreams1.83.0 is already the newest version (1.83.0-5+b1). libboost-iostreams1.83.0 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.yd84Fx_2ki (Reading database ... 83598 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.yd84Fx_2ki I: running special hook: download /pkglist ./pkglist I: running --customize-hook in shell: sh -c 'rm "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.yd84Fx_2ki 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.yd84Fx_2ki... I: success in 322.1924 seconds env --chdir=/srv/rebuilderd/tmp/rebuilderde3eNxT/out DEB_BUILD_OPTIONS=parallel=8 LANG=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 SOURCE_DATE_EPOCH=1761040834 SBUILD_CONFIG=/srv/rebuilderd/tmp/debrebuildiykDAy/debrebuild.sbuildrc.1tSm3FfSllb2 sbuild --build=arm64 --host=arm64 --no-source --arch-any --no-arch-all --chroot=/srv/rebuilderd/tmp/debrebuildiykDAy/debrebuild.tar.s688Pp51iguJ --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=rdkit-202503.6 /srv/rebuilderd/tmp/rebuilderde3eNxT/inputs/rdkit_202503.6-3.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 (Debian sbuild) 0.89.3+deb13u4 (28 December 2025) on codethink02-arm64 +==============================================================================+ | rdkit 202503.6-3 (arm64) Fri, 16 Jan 2026 04:43:37 +0000 | +==============================================================================+ Package: rdkit Version: 202503.6-3 Source Version: 202503.6-3 Distribution: unstable Machine Architecture: arm64 Host Architecture: arm64 Build Architecture: arm64 Build Type: any I: No tarballs found in /srv/rebuilderd/.cache/sbuild I: Unpacking /srv/rebuilderd/tmp/debrebuildiykDAy/debrebuild.tar.s688Pp51iguJ to /srv/rebuilderd/tmp/tmp.sbuild.AkXnHgUSh0... I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... I: Setting up apt archive... +------------------------------------------------------------------------------+ | Fetch source files Fri, 16 Jan 2026 04:44:09 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/rebuilderd/tmp/rebuilderde3eNxT/inputs/rdkit_202503.6-3.dsc exists in /srv/rebuilderd/tmp/rebuilderde3eNxT/inputs; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Fri, 16 Jan 2026 04:44:13 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: architecture-is-64-bit, architecture-is-little-endian, bison, catch2, cmake (>= 4.1.2-1), debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-numpy-dev, libboost-program-options-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libcairo2-dev, libcoordgen-dev, libeigen3-dev, libfreetype-dev, libinchi-dev (>= 1.07.1+dfsg-2), libmaeparser-dev, librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-myst-parser, python3-numpy-dev, python3-pandas, python3-pil | python3-imaging, python3-pytest, python3-recommonmark, python3-sphinx, python3-sqlalchemy, rapidjson-dev, tex-gyre, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended, build-essential Filtered Build-Depends: architecture-is-64-bit, architecture-is-little-endian, bison, catch2, cmake (>= 4.1.2-1), debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-numpy-dev, libboost-program-options-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libcairo2-dev, libcoordgen-dev, libeigen3-dev, libfreetype-dev, libinchi-dev (>= 1.07.1+dfsg-2), libmaeparser-dev, librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-myst-parser, python3-numpy-dev, python3-pandas, python3-pil, python3-pytest, python3-recommonmark, python3-sphinx, python3-sqlalchemy, rapidjson-dev, tex-gyre, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/reproducible-path/resolver-xqQCmN/apt_archive/sbuild-build-depends-main-dummy.deb'. Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies +------------------------------------------------------------------------------+ | Check architectures Fri, 16 Jan 2026 04:44:20 +0000 | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any all) +------------------------------------------------------------------------------+ | Build environment Fri, 16 Jan 2026 04:44:21 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.63+deb13-cloud-arm64 #1 SMP Debian 6.12.63-1 (2025-12-30) arm64 (aarch64) Toolchain package versions: binutils_2.45.50.20251209-1 dpkg-dev_1.23.3 g++-15_15.2.0-12 gcc-15_15.2.0-12 libc6-dev_2.42-7 libstdc++-15-dev_15.2.0-12 libstdc++6_15.2.0-12 linux-libc-dev_6.18.3-1 Package versions: adduser_3.154 architecture-properties_0.2.6 autoconf_2.72-3.1 automake_1:1.18.1-3 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tzdata_2025c-3 ucf_3.0052 util-linux_2.41.3-3 uuid-dev_2.41.3-3 x11-common_1:7.7+26 x11proto-dev_2024.1-1 xdg-utils_1.2.1-2 xfonts-encodings_1:1.0.4-2.2 xfonts-utils_1:7.7+7 xml-core_0.19 xorg-sgml-doctools_1:1.11-1.1 xtrans-dev_1.6.0-1 xz-utils_5.8.2-1 zlib1g_1:1.3.dfsg+really1.3.1-1+b2 zlib1g-dev_1:1.3.dfsg+really1.3.1-1+b2 +------------------------------------------------------------------------------+ | Build Fri, 16 Jan 2026 04:44:21 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: rdkit Binary: python3-rdkit, rdkit-doc, rdkit-data, librdkit1t64, librdkit-dev, postgresql-18-rdkit Architecture: any all Version: 202503.6-3 Maintainer: Debichem Team Uploaders: Michael Banck , Andrius Merkys , Roland Mas , Homepage: http://www.rdkit.org Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/debichem-team/rdkit Vcs-Git: https://salsa.debian.org/debichem-team/rdkit.git Testsuite: autopkgtest Testsuite-Triggers: dpkg-dev, postgresql-common-dev Build-Depends: architecture-is-64-bit, architecture-is-little-endian, bison, catch2, cmake (>= 4.1.2-1), debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-numpy-dev, libboost-program-options-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libcairo2-dev, libcoordgen-dev, libeigen3-dev, libfreetype-dev, libinchi-dev (>= 1.07.1+dfsg-2), libmaeparser-dev, librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-myst-parser, python3-numpy-dev, python3-pandas, python3-pil | python3-imaging, python3-pytest, python3-recommonmark, python3-sphinx, python3-sqlalchemy, rapidjson-dev, tex-gyre, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended Package-List: librdkit-dev deb libdevel optional arch=any librdkit1t64 deb libs optional arch=any postgresql-18-rdkit deb database optional arch=any python3-rdkit deb python optional arch=any rdkit-data deb science optional arch=all rdkit-doc deb doc optional arch=all Checksums-Sha1: 8980fdc9e0a1aaed921ba513dcc175df8299b0b7 64217064 rdkit_202503.6.orig.tar.xz b180f3137ec8c76de1583d5577aa67daeb965943 49300 rdkit_202503.6-3.debian.tar.xz Checksums-Sha256: 88fa533178ab825e336ad22a6d0b8f1d392f038a99dec8787f25ad27d4a5544a 64217064 rdkit_202503.6.orig.tar.xz 6d69ea5291ed8e5a98a35508878e44dac3f0bc34f31978ef05c6fd0472987efa 49300 rdkit_202503.6-3.debian.tar.xz Files: 93941122f9c12328a05e5489ed103015 64217064 rdkit_202503.6.orig.tar.xz f31d6123bb37d17143b569bbe2bafa2c 49300 rdkit_202503.6-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEdyKS9veshfrgQdQe5fQ/nCc08ocFAmj3Wu8SHG1lcmt5c0Bk ZWJpYW4ub3JnAAoJEOX0P5wnNPKH/38P/iBZXJiFeFUyo5GPEIwbbtTWt4a+4pn+ pz9wQMbtEaP83H1sIjnDgEYM71qYXzZHejxmz2kFnYT/GSy6yoM5Ux1pNN4WYRwW 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/usr/share/keyrings/debian-nonupload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-maintainers.pgp dpkg-source: info: extracting rdkit in /build/reproducible-path/rdkit-202503.6 dpkg-source: info: unpacking rdkit_202503.6.orig.tar.xz dpkg-source: info: unpacking rdkit_202503.6-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying NoDownloads.patch dpkg-source: info: applying postgres_Makefile_fixes.patch dpkg-source: info: applying sphinx_imgconverter.patch dpkg-source: info: applying postgres_alternative_test_outputs.patch dpkg-source: info: applying sphinx_compile_fixes.patch dpkg-source: info: applying extra_float_digits dpkg-source: info: applying postgres_cmakelists_fixes.patch dpkg-source: info: applying disable_pgsql_test.patch dpkg-source: info: applying fix_inchi_linking.patch dpkg-source: info: applying disable_inchi_test.patch dpkg-source: info: applying disable_python_test.patch dpkg-source: info: applying better_enums.patch dpkg-source: info: applying fix-shebangs.patch dpkg-source: info: applying remove-badges.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=8 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=1761040834 USER=sbuild dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -B dpkg-buildpackage: info: source package rdkit dpkg-buildpackage: info: source version 202503.6-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean pg_buildext checkcontrol dh clean --with python3 --buildsystem=cmake debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' find /build/reproducible-path/rdkit-202503.6 -name "*.pyc" | xargs rm -f rm -f -r Projects/DbCLI/testData/bzr/ rdkit/Chem/inchi.py rm -f -r Docs/Book/_build Code/docs rdkit/docs Code/doxygen_sqlite3.db rm -f \ Code/ForceField/MMFF/test_data/MMFF94_dative_min.sdf \ Code/ForceField/MMFF/test_data/MMFF94_dative_min_from_SMILES.sdf \ Code/ForceField/MMFF/test_data/MMFF94_hypervalent_min.sdf \ Code/ForceField/MMFF/test_data/MMFF94_hypervalent_min_from_SMILES.sdf \ Code/ForceField/MMFF/test_data/MMFF94_reference.log \ Code/ForceField/MMFF/test_data/MMFF94s_reference.log \ Code/ForceField/MMFF/test_data/testMMFFForceField.log \ Code/GraphMol/Depictor/test_data/cis_trans_cpp.out.sdf \ Code/GraphMol/Depictor/test_data/collisions.out.sdf \ Code/GraphMol/Depictor/test_data/first_200.out.sdf \ Code/GraphMol/Depictor/test_data/test1.out.sdf \ Code/GraphMol/FileParsers/test_data/blah.sdf \ Code/GraphMol/FileParsers/test_data/cdk2_stereo.sdf \ Code/GraphMol/FileParsers/test_data/outNCI_few.sdf \ Code/GraphMol/FileParsers/test_data/outNCI_few.tdt \ Code/GraphMol/FileParsers/test_data/outNCI_first_200.props.sdf \ Code/GraphMol/FileParsers/test_data/outSmiles.csv \ Code/GraphMol/ForceFieldHelpers/UFF/test_data/Issue62.sdf \ Code/GraphMol/MolAlign/test_data/ref_e2_pyCrippenO3A.sdf \ Code/GraphMol/SLNParse/lex.yysln.cpp \ Code/GraphMol/SLNParse/sln.tab.cpp \ Code/GraphMol/SLNParse/sln.tab.hpp \ Code/GraphMol/SmilesParse/lex.yysmarts.cpp \ Code/GraphMol/SmilesParse/lex.yysmiles.cpp \ Code/GraphMol/SmilesParse/smarts.tab.cpp \ Code/GraphMol/SmilesParse/smarts.tab.hpp \ Code/GraphMol/SmilesParse/smiles.tab.cpp \ Code/GraphMol/SmilesParse/smiles.tab.hpp \ Code/GraphMol/Wrap/test_data/outNCI_few.sdf \ Code/GraphMol/Wrap/test_data/outSmiles.txt \ Code/RDGeneral/versions.cpp \ Docs/Book/Cartridge.rst \ Docs/Book/Install.rst \ Docs/Book/Overview.rst \ rdkit/ML/Data/test_data/testgeneral.dat.pkl \ rdkit/ML/Data/test_data/testquant.qdat.pkl rm -f Code/RDGeneral/versions.h rdkit/sping/tests/testallps.ps dh_auto_clean rm -f -rf /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-* make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake debian/rules binary-arch dh binary-arch --with python3 --buildsystem=cmake dh_update_autotools_config -a -O--buildsystem=cmake dh_autoreconf -a -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' dh_auto_configure -- -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_OPTIMIZE_POPCNT=OFF -DRDK_USE_URF=OFF -DRDK_INSTALL_COMIC_FONTS=OFF -DRDK_BUILD_CAIRO_SUPPORT=ON -DRDK_BUILD_PUBCHEMSHAPE_SUPPORT=OFF -DRDK_BUILD_XYZ2MOL_SUPPORT=ON -DRDK_BUILD_CHEMDRAW_SUPPORT=OFF -DBoost_NO_BOOST_CMAKE=TRUE -DCMAKE_INSTALL_PREFIX=/usr -DCATCH_DIR=/usr/include/catch2 -DRDK_BUILD_PGSQL=ON -DRDK_PGSQL_STATIC=OFF -DPostgreSQL_CONFIG=/usr/bin/pg_config -DPostgreSQL_TYPE_INCLUDE_DIR="/usr/include/postgresql/18/server" -DCMAKE_CTEST_ARGUMENTS=--timeout=7200 -DPYTHON_EXECUTABLE=/usr/bin/python3.13 ../ cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_OPTIMIZE_POPCNT=OFF -DRDK_USE_URF=OFF -DRDK_INSTALL_COMIC_FONTS=OFF -DRDK_BUILD_CAIRO_SUPPORT=ON -DRDK_BUILD_PUBCHEMSHAPE_SUPPORT=OFF -DRDK_BUILD_XYZ2MOL_SUPPORT=ON -DRDK_BUILD_CHEMDRAW_SUPPORT=OFF -DBoost_NO_BOOST_CMAKE=TRUE -DCMAKE_INSTALL_PREFIX=/usr -DCATCH_DIR=/usr/include/catch2 -DRDK_BUILD_PGSQL=ON -DRDK_PGSQL_STATIC=OFF -DPostgreSQL_CONFIG=/usr/bin/pg_config -DPostgreSQL_TYPE_INCLUDE_DIR=/usr/include/postgresql/18/server -DCMAKE_CTEST_ARGUMENTS=--timeout=7200 -DPYTHON_EXECUTABLE=/usr/bin/python3.13 ../ .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found Inchi: /usr/lib/aarch64-linux-gnu/libinchi.so -- Found Python3: /usr/bin/python3 (found version "3.13.11") found components: Interpreter Development.Module NumPy Python Install directory /usr/lib/python3.13/site-packages nbval not found, disabling the jupyter tests -- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0") -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found PostgreSQL: /usr/lib/aarch64-linux-gnu/libpq.so (found version "18.1") == Using strict rotor definition -- Found Python3: /usr/bin/python3 (found version "3.13.11") found components: Interpreter -- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1") -- Found Cairo: /usr/include/cairo -- Found Freetype: /usr/lib/aarch64-linux-gnu/libfreetype.so (found version "2.14.1") postgres: /usr/include/postgresql;/usr/include/postgresql/18/server CMake Warning (dev) at Code/PgSQL/rdkit/CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at Code/PgSQL/rdkit/CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at Code/PgSQL/rdkit/CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (3.8s) -- Generating done (2.7s) CMake Warning: Manually-specified variables were not used by the project: Boost_NO_BOOST_CMAKE CATCH_DIR CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED PYTHON_EXECUTABLE -- Build files have been written to: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu for v in $(pg_buildext supported-versions); do \ (mkdir -p Code/PgSQL/rdkit/build-$v && cd Code/PgSQL/rdkit/build-$v && cmake -DPostgreSQL_CONFIG=/usr/lib/postgresql/$v/bin/pg_config -DRDK_PGSQL_STATIC=OFF -DPostgreSQL_TYPE_INCLUDE_DIR="/usr/include/postgresql/$v/server" -DCMAKE_VERBOSE_MAKEFILE=1 -DRDKit_CodeDir=../../../Code ../); \ done -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found PostgreSQL: /usr/lib/aarch64-linux-gnu/libpq.so (found version "18.1") postgres: /usr/include/postgresql;/usr/include/postgresql/18/server CMake Warning (dev) at CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (1.2s) -- Generating done (0.0s) -- Build files have been written to: /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18 make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' dh_auto_build cd obj-aarch64-linux-gnu && make -j8 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/rdkit-202503.6 -B/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/CMakeFiles /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/depend make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/External/INCHI-API /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake "--color=" inchi_support make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/RDGeneral /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/RDGeneral.dir/DependInfo.cmake "--color=" RDGeneral make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/External/CoordGen /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake "--color=" coordgen_support make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/External/RingFamilies /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/RingFamilies /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/DependInfo.cmake "--color=" 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object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o -MF CMakeFiles/hc.dir/hcdriver.c.o.d -o CMakeFiles/hc.dir/hcdriver.c.o -c /build/reproducible-path/rdkit-202503.6/Code/ML/Cluster/Murtagh/hcdriver.c [ 0%] Linking C shared library ../../../../lib/libRDKithc.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/hc.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/hc.dir/link.d -Wl,-soname,libRDKithc.so.1 -o ../../../../lib/libRDKithc.so.1.2025.03.6 CMakeFiles/hc.dir/hc.c.o CMakeFiles/hc.dir/hcdriver.c.o /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_symlink_library ../../../../lib/libRDKithc.so.1.2025.03.6 ../../../../lib/libRDKithc.so.1 ../../../../lib/libRDKithc.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 0%] Built target hc [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD 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Building CXX object External/GA/CMakeFiles/ga.dir/ga/Chromosome.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o -MF CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o.d -o CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/GA/ga/IntegerStringChromosomePolicy.cpp [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK 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CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/GA/ga/BinaryStringChromosomePolicy.cpp [ 1%] Building CXX object External/GA/CMakeFiles/ga.dir/util/RandomUtil.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/util/RandomUtil.cpp.o -MF CMakeFiles/ga.dir/util/RandomUtil.cpp.o.d -o CMakeFiles/ga.dir/util/RandomUtil.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/GA/util/RandomUtil.cpp [ 1%] Building CXX object External/GA/CMakeFiles/ga.dir/util/Util.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/util/Util.cpp.o -MF CMakeFiles/ga.dir/util/Util.cpp.o.d -o CMakeFiles/ga.dir/util/Util.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/GA/util/Util.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_BOOST_STACKTRACE -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/RDGeneral/CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o -MF CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o.d -o CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/LocaleSwitcher.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_BOOST_STACKTRACE -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o -MF CMakeFiles/RDGeneral.dir/versions.cpp.o.d -o CMakeFiles/RDGeneral.dir/versions.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/versions.cpp [ 2%] Linking CXX static library librdkitCatch.a cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -P CMakeFiles/rdkitCatch.dir/cmake_clean_target.cmake cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdkitCatch.dir/link.txt --verbose=1 /usr/bin/ar qc librdkitCatch.a CMakeFiles/rdkitCatch.dir/catch_main.cpp.o /usr/bin/ranlib librdkitCatch.a make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Built target rdkitCatch [ 2%] Linking CXX shared library ../../lib/libRDKitRDStreams.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDStreams && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDStreams.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/RDStreams.dir/link.d -Wl,-soname,libRDKitRDStreams.so.1 -o ../../lib/libRDKitRDStreams.so.1.2025.03.6 CMakeFiles/RDStreams.dir/streams.cpp.o /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDStreams && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDStreams.so.1.2025.03.6 ../../lib/libRDKitRDStreams.so.1 ../../lib/libRDKitRDStreams.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Built target RDStreams [ 2%] Linking CXX shared library ../../lib/libRDKitga.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/GA && /usr/bin/cmake -E cmake_link_script CMakeFiles/ga.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ga.dir/link.d -Wl,-soname,libRDKitga.so.1 -o ../../lib/libRDKitga.so.1.2025.03.6 CMakeFiles/ga.dir/ga/StringChromosome.cpp.o CMakeFiles/ga.dir/ga/Chromosome.cpp.o CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o CMakeFiles/ga.dir/util/RandomUtil.cpp.o CMakeFiles/ga.dir/util/Util.cpp.o /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/GA && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitga.so.1.2025.03.6 ../../lib/libRDKitga.so.1 ../../lib/libRDKitga.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Built target ga [ 2%] Linking CXX shared library ../../lib/libRDKitRDGeneral.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && 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/usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeneral.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1 ../../lib/libRDKitRDGeneral.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Built target RDGeneral make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/depend make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/DataStructs /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake "--color=" DataStructs make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake "--color=" 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/RDGeneral /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/DependInfo.cmake "--color=" testConcurrentQueue make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/RDGeneral /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/logTestsCatch.dir/DependInfo.cmake "--color=" logTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make -f Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DEigenSolvers_EXPORTS 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o -MF CMakeFiles/DataStructs.dir/BitVect.cpp.o.d -o CMakeFiles/DataStructs.dir/BitVect.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitVect.cpp [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o -MF CMakeFiles/testRDValue.dir/testRDValue.cpp.o.d -o CMakeFiles/testRDValue.dir/testRDValue.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/testRDValue.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -MF CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o.d -o CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/testConcurrentQueue.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDBoost && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDBoost_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDBOOST_BUILD -DRDK_64BIT_BUILD 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o -MF CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o.d -o CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/catch_dict.cpp [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDataStructs_EXPORTS 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1 ../../../lib/libRDKitEigenSolvers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 4%] Built target EigenSolvers [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/Catalogs/CMakeFiles/Catalogs.dir/Catalog.cpp.o -MF CMakeFiles/Catalogs.dir/Catalog.cpp.o.d -o CMakeFiles/Catalogs.dir/Catalog.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Catalogs/Catalog.cpp [ 7%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o -MF CMakeFiles/DataStructs.dir/BitOps.cpp.o.d -o CMakeFiles/DataStructs.dir/BitOps.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitOps.cpp [ 7%] Linking CXX shared library ../../lib/libRDKitRDBoost.so cd 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/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o -MF CMakeFiles/Clustering.dir/Clustering.cpp.o.d -o CMakeFiles/Clustering.dir/Clustering.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ML/Cluster/Murtagh/Clustering.cpp [ 8%] Linking CXX executable testMatrices cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatrices.dir/link.txt --verbose=1 [ 8%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && 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testRDValue [ 9%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -MF CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o.d -o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/HierarchicalClusterPicker.cpp [ 9%] Linking CXX executable testDict cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testDict.dir/link.d CMakeFiles/testDict.dir/testDict.cpp.o -o testDict librdkitCatch.a ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/libCatch2.a /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 9%] Built target testDict [ 9%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/RealValueVect.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/RealValueVect.cpp.o -MF CMakeFiles/DataStructs.dir/RealValueVect.cpp.o.d -o CMakeFiles/DataStructs.dir/RealValueVect.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/RealValueVect.cpp [ 9%] Linking CXX executable testQuery cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Query && 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitSimDivPickers.so.1.2025.03.6 ../../lib/libRDKitSimDivPickers.so.1 ../../lib/libRDKitSimDivPickers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 9%] Built target SimDivPickers make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake "--color=" testSimDivPickers make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 9%] Building CXX object Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -MF CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o.d -o CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/testPickers.cpp [ 9%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so cd 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/usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 9%] Built target Clustering [ 9%] Linking CXX shared library ../../lib/libRDKitDataStructs.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/DataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/DataStructs.dir/link.d -Wl,-soname,libRDKitDataStructs.so.1 -o ../../lib/libRDKitDataStructs.so.1.2025.03.6 CMakeFiles/DataStructs.dir/BitVect.cpp.o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o CMakeFiles/DataStructs.dir/Utils.cpp.o CMakeFiles/DataStructs.dir/base64.cpp.o CMakeFiles/DataStructs.dir/BitOps.cpp.o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/DataStructs.dir/FPBReader.cpp.o CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o CMakeFiles/DataStructs.dir/RealValueVect.cpp.o ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1 ../../lib/libRDKitDataStructs.so make[4]: Leaving 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-DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -MF CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o.d -o CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/testDatastructs.cpp cd 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o -MF CMakeFiles/cDataStructs.dir/DataStructs.cpp.o.d -o CMakeFiles/cDataStructs.dir/DataStructs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/DataStructs.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o -MF CMakeFiles/testFPB.dir/testFPB.cpp.o.d -o CMakeFiles/testFPB.dir/testFPB.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/testFPB.cpp [ 11%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDGeometryLib_EXPORTS 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 11%] Built target testSimDivPickers make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap 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-DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMetricMatrixCalc_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -MF CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o.d -o CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp [ 11%] Linking CXX executable catchDataStructs cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/catchDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/catchDataStructs.dir/link.d CMakeFiles/catchDataStructs.dir/catch_tests.cpp.o -o catchDataStructs ../RDGeneral/librdkitCatch.a 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Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -MF CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/UniformGrid3D.cpp [ 11%] Linking CXX executable testFPB cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFPB.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testFPB.dir/link.d 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-DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformRealValueGrid3D.cpp.o -MF CMakeFiles/RDGeometryLib.dir/UniformRealValueGrid3D.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/UniformRealValueGrid3D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/UniformRealValueGrid3D.cpp [ 11%] Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so cd 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/usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 11%] Built target rdMetricMatrixCalc [ 11%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -MF CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/GridUtils.cpp [ 11%] Linking CXX executable testMultiFPB cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 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make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake "--color=" pickersTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 12%] Building CXX object 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make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 12%] Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DInfoTheory_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_INFOTHEORY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -MF CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o.d -o CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/InfoBitRanker.cpp [ 12%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeometryLib.dir/link.txt --verbose=1 [ 13%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/RealValueVect.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK 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-DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/wrap_SparseBV.cpp [ 13%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_link_script CMakeFiles/InfoTheory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard 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-DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o -MF CMakeFiles/GraphMol.dir/Atom.cpp.o.d -o 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../../lib/libRDKithc.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Built target pickersTestsCatch [ 13%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS 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-I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/wrap_FPB.cpp [ 13%] Linking CXX executable testDataStructs cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 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Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function 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make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o -MF CMakeFiles/testGrid.dir/testGrid.cpp.o.d -o CMakeFiles/testGrid.dir/testGrid.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/testGrid.cpp [ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o -MF CMakeFiles/GraphMol.dir/Bond.cpp.o.d -o CMakeFiles/GraphMol.dir/Bond.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Bond.cpp [ 13%] Linking CXX shared library ../../../lib/libRDKitAlignment.so cd 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/usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1 ../../../lib/libRDKitAlignment.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Built target Alignment make -f Code/Geometry/CMakeFiles/testRealValueGrid.dir/build.make Code/Geometry/CMakeFiles/testRealValueGrid.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/Geometry /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry 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-DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/Geometry/CMakeFiles/testRealValueGrid.dir/testRealValueGrid.cpp.o -MF CMakeFiles/testRealValueGrid.dir/testRealValueGrid.cpp.o.d -o CMakeFiles/testRealValueGrid.dir/testRealValueGrid.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/testRealValueGrid.cpp [ 13%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/cDataStructs.dir/link.txt --verbose=1 [ 13%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/cDataStructs.dir/link.d -o ../../../rdkit/DataStructs/cDataStructs.so CMakeFiles/cDataStructs.dir/DataStructs.cpp.o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o CMakeFiles/cDataStructs.dir/RealValueVect.cpp.o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Built target cDataStructs make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/Geometry /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake "--color=" geometryTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Building CXX object Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o cd 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CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o ../../../lib/libRDKitSimDivPickers.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../lib/libRDKithc.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Built target rdSimDivPickers make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o -MF CMakeFiles/rdGeometry.dir/Point.cpp.o.d -o CMakeFiles/rdGeometry.dir/Point.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/Wrap/Point.cpp [ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 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Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -MF CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o.d -o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/Wrap/UniformGrid3D.cpp [ 13%] Linking CXX shared module ../../../rdkit/rdBase.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDBoost/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdBase.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdBase.dir/link.d -o 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/usr/lib/libCatch2.a -ldl /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 14%] Built target testRealValueGrid make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/Numerics/Alignment/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 14%] Built target geometryTestsCatch [ 14%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformRealValueGrid3D.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 14%] Built target rdAlignment make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake "--color=" rdInfoTheory make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 14%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -MF CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o.d -o CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PeriodicTable.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o -MF CMakeFiles/GraphMol.dir/atomic_data.cpp.o.d -o CMakeFiles/GraphMol.dir/atomic_data.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/atomic_data.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/bits/stl_tree.h:65, from /usr/include/c++/15/map:64, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PeriodicTable.h:14, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PeriodicTable.cpp:11: /usr/include/c++/15/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PeriodicTable.cpp:96:57: required from here 96 | adata.d_isotopeInfoMap[isotope] = std::make_pair(mass, abundance); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 15%] Linking CXX shared module ../../../rdkit/Geometry/rdGeometry.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdGeometry.dir/link.txt --verbose=1 [ 15%] Linking CXX executable testBaseFeatures cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Features && /usr/bin/cmake -E cmake_link_script CMakeFiles/testBaseFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testBaseFeatures.dir/link.d CMakeFiles/testBaseFeatures.dir/testFeatures.cpp.o -o testBaseFeatures ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 /usr/lib/libCatch2.a ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 -ldl /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 15%] Built target testBaseFeatures make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/ML/Data /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu 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Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o -MF CMakeFiles/GraphMol.dir/MolPickler.cpp.o.d -o CMakeFiles/GraphMol.dir/MolPickler.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolPickler.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD 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../../lib/libRDKitChemicalFeatures.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ChemicalFeatures.dir/link.d -Wl,-soname,libRDKitChemicalFeatures.so.1 -o ../../lib/libRDKitChemicalFeatures.so.1.2025.03.6 CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitChemicalFeatures.so.1.2025.03.6 ../../lib/libRDKitChemicalFeatures.so.1 ../../lib/libRDKitChemicalFeatures.so [ 15%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 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make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 15%] Built target ChemicalFeatures make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake "--color=" testChemicalFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -MF CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o.d -o CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/testChemicalFeatures.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolPickler.cpp: In function ‘void RDKit::streamReadPositiveChar(std::istream&, char&, int)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolPickler.cpp:72:11: warning: comparison is always false due to limited range of data type [-Wtype-limits] 72 | if (res < 0) { | ~~~~^~~ [ 15%] Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Data && /usr/bin/cmake -E cmake_link_script CMakeFiles/cQuantize.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 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-fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -MF CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o.d -o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp [ 15%] Linking CXX executable testChemicalFeatures cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testChemicalFeatures.dir/link.d CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -o testChemicalFeatures ../RDGeneral/librdkitCatch.a ../../lib/libRDKitChemicalFeatures.so.1.2025.03.6 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 15%] Built target testChemicalFeatures [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD 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15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o -MF CMakeFiles/GraphMol.dir/Aromaticity.cpp.o.d -o CMakeFiles/GraphMol.dir/Aromaticity.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Aromaticity.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o -MF CMakeFiles/GraphMol.dir/Kekulize.cpp.o.d -o CMakeFiles/GraphMol.dir/Kekulize.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Kekulize.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ConjugHybrid.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o -MF CMakeFiles/GraphMol.dir/AddHs.cpp.o.d -o CMakeFiles/GraphMol.dir/AddHs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/AddHs.cpp [ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o -MF CMakeFiles/GraphMol.dir/Matrices.cpp.o.d -o CMakeFiles/GraphMol.dir/Matrices.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Matrices.cpp [ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Chirality.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Chirality.cpp.o -MF CMakeFiles/GraphMol.dir/Chirality.cpp.o.d -o CMakeFiles/GraphMol.dir/Chirality.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Chirality.cpp [ 17%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdInfoTheory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdInfoTheory.dir/link.d -o ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o ../../../../lib/libRDKitInfoTheory.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 17%] Built target rdInfoTheory [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RingInfo.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/RingInfo.cpp.o -MF CMakeFiles/GraphMol.dir/RingInfo.cpp.o.d -o CMakeFiles/GraphMol.dir/RingInfo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RingInfo.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Conformer.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Conformer.cpp.o -MF CMakeFiles/GraphMol.dir/Conformer.cpp.o.d -o CMakeFiles/GraphMol.dir/Conformer.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Conformer.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o -MF CMakeFiles/GraphMol.dir/Renumber.cpp.o.d -o CMakeFiles/GraphMol.dir/Renumber.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Renumber.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o -MF CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o.d -o CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/AdjustQuery.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o -MF CMakeFiles/GraphMol.dir/Resonance.cpp.o.d -o CMakeFiles/GraphMol.dir/Resonance.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Resonance.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o -MF CMakeFiles/GraphMol.dir/StereoGroup.cpp.o.d -o CMakeFiles/GraphMol.dir/StereoGroup.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StereoGroup.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o -MF CMakeFiles/GraphMol.dir/new_canon.cpp.o.d -o CMakeFiles/GraphMol.dir/new_canon.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/new_canon.cpp [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o -MF CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o.d -o CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstanceGroup.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o -MF CMakeFiles/GraphMol.dir/FindStereo.cpp.o.d -o CMakeFiles/GraphMol.dir/FindStereo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FindStereo.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o -MF CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o.d -o CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MonomerInfo.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o -MF CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o.d -o CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/NontetrahedralStereo.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atropisomers.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Atropisomers.cpp.o -MF CMakeFiles/GraphMol.dir/Atropisomers.cpp.o.d -o CMakeFiles/GraphMol.dir/Atropisomers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Atropisomers.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o -MF CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o.d -o CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/WedgeBonds.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolProps.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/MolProps.cpp.o -MF CMakeFiles/GraphMol.dir/MolProps.cpp.o.d -o CMakeFiles/GraphMol.dir/MolProps.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolProps.cpp [ 18%] Linking CXX shared library ../../lib/libRDKitGraphMol.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/GraphMol.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/GraphMol.dir/link.d -Wl,-soname,libRDKitGraphMol.so.1 -o ../../lib/libRDKitGraphMol.so.1.2025.03.6 CMakeFiles/GraphMol.dir/Atom.cpp.o CMakeFiles/GraphMol.dir/QueryAtom.cpp.o CMakeFiles/GraphMol.dir/QueryBond.cpp.o CMakeFiles/GraphMol.dir/Bond.cpp.o CMakeFiles/GraphMol.dir/MolOps.cpp.o CMakeFiles/GraphMol.dir/FindRings.cpp.o CMakeFiles/GraphMol.dir/ROMol.cpp.o CMakeFiles/GraphMol.dir/RWMol.cpp.o CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o CMakeFiles/GraphMol.dir/atomic_data.cpp.o CMakeFiles/GraphMol.dir/QueryOps.cpp.o CMakeFiles/GraphMol.dir/MolPickler.cpp.o CMakeFiles/GraphMol.dir/Canon.cpp.o CMakeFiles/GraphMol.dir/AtomIterators.cpp.o CMakeFiles/GraphMol.dir/BondIterators.cpp.o CMakeFiles/GraphMol.dir/Aromaticity.cpp.o CMakeFiles/GraphMol.dir/Kekulize.cpp.o CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o CMakeFiles/GraphMol.dir/AddHs.cpp.o CMakeFiles/GraphMol.dir/Matrices.cpp.o CMakeFiles/GraphMol.dir/Chirality.cpp.o CMakeFiles/GraphMol.dir/RingInfo.cpp.o CMakeFiles/GraphMol.dir/Conformer.cpp.o CMakeFiles/GraphMol.dir/Renumber.cpp.o CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o CMakeFiles/GraphMol.dir/Resonance.cpp.o CMakeFiles/GraphMol.dir/StereoGroup.cpp.o CMakeFiles/GraphMol.dir/new_canon.cpp.o CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o CMakeFiles/GraphMol.dir/FindStereo.cpp.o CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o CMakeFiles/GraphMol.dir/Atropisomers.cpp.o CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o CMakeFiles/GraphMol.dir/MolProps.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1 ../../lib/libRDKitGraphMol.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 18%] Built target GraphMol make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake "--color=" MolTransforms make -f Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake "--color=" CIPLabeler make -f Code/GraphMol/CMakeFiles/tableTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/tableTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 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-fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o -MF CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o.d -o CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolTransforms/MolTransforms.cpp [ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION 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Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGenericGroups_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GENERICGROUPS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o -MF CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o.d -o CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GenericGroups/GenericGroups.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o -MF CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o.d -o CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/Subgraphs.cpp [ 19%] Building CXX object Code/GraphMol/CMakeFiles/tableTestsCatch.dir/catch_periodictable.cpp.o [ 19%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o cd 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/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -MF CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o.d -o CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/GasteigerCharges.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/tableTestsCatch.dir/catch_periodictable.cpp.o -MF CMakeFiles/tableTestsCatch.dir/catch_periodictable.cpp.o.d -o CMakeFiles/tableTestsCatch.dir/catch_periodictable.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_periodictable.cpp [ 19%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o -MF CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o.d -o CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/CIPLabeler.cpp [ 19%] Linking CXX executable tableTestsCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/tableTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/tableTestsCatch.dir/link.d CMakeFiles/tableTestsCatch.dir/catch_periodictable.cpp.o -o tableTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitGraphMol.so.1.2025.03.6 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 19%] Built target tableTestsCatch make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake "--color=" MolCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 19%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o -MF CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o.d -o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/GasteigerParams.cpp [ 20%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -MF CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o.d -o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/SubgraphUtils.cpp [ 20%] Linking CXX shared library ../../../lib/libRDKitTrajectory.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/Trajectory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/Trajectory.dir/link.d -Wl,-soname,libRDKitTrajectory.so.1 -o ../../../lib/libRDKitTrajectory.so.1.2025.03.6 CMakeFiles/Trajectory.dir/Trajectory.cpp.o ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../lib/libRDKitTrajectory.so.1 ../../../lib/libRDKitTrajectory.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 20%] Built target Trajectory make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake "--color=" MolInterchange make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Parser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/External/rapidjson-1.1.0/include -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Parser.cpp.o -MF CMakeFiles/MolInterchange.dir/Parser.cpp.o.d -o CMakeFiles/MolInterchange.dir/Parser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/Parser.cpp [ 20%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o -MF CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesParseOps.cpp [ 20%] Linking CXX shared library ../../../lib/libRDKitPartialCharges.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/PartialCharges.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/PartialCharges.dir/link.d -Wl,-soname,libRDKitPartialCharges.so.1 -o ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1 ../../../lib/libRDKitPartialCharges.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 20%] Built target PartialCharges make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse 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-DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.cpp.o -MF CMakeFiles/SLNParse.dir/SLNParse.cpp.o.d -o CMakeFiles/SLNParse.dir/SLNParse.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/SLNParse.cpp [ 20%] Linking CXX shared library ../../../lib/libRDKitMolTransforms.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolTransforms.dir/link.txt --verbose=1 [ 20%] Linking CXX shared library ../../../lib/libRDKitGenericGroups.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups && /usr/bin/cmake -E cmake_link_script CMakeFiles/GenericGroups.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MolTransforms.dir/link.d -Wl,-soname,libRDKitMolTransforms.so.1 -o ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1 ../../../lib/libRDKitMolTransforms.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 20%] Built target MolTransforms make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake "--color=" rdqueries make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/GenericGroups.dir/link.d -Wl,-soname,libRDKitGenericGroups.so.1 -o ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1 ../../../lib/libRDKitGenericGroups.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o -MF CMakeFiles/rdqueries.dir/rdqueries.cpp.o.d -o CMakeFiles/rdqueries.dir/rdqueries.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdqueries.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 20%] Built target GenericGroups [ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Mancude.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Mancude.cpp.o -MF CMakeFiles/CIPLabeler.dir/Mancude.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Mancude.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Mancude.cpp [ 20%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o -MF CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o.d -o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/MolCatalogParams.cpp [ 20%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -MF CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o.d -o CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/SLNAttribs.cpp [ 20%] Linking CXX shared library ../../../lib/libRDKitMolCatalog.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MolCatalog.dir/link.d -Wl,-soname,libRDKitMolCatalog.so.1 -o ../../../lib/libRDKitMolCatalog.so.1.2025.03.6 CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolCatalog.so.1.2025.03.6 ../../../lib/libRDKitMolCatalog.so.1 ../../../lib/libRDKitMolCatalog.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 20%] Built target MolCatalog [ 20%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o -MF CMakeFiles/rdqueries.dir/Queries.cpp.o.d -o CMakeFiles/rdqueries.dir/Queries.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/Queries.cpp [ 21%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so cd 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1 ../../../lib/libRDKitSubgraphs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 21%] Built target Subgraphs [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Digraph.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Digraph.cpp.o -MF CMakeFiles/CIPLabeler.dir/Digraph.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Digraph.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Digraph.cpp [ 21%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o -MF CMakeFiles/SLNParse.dir/sln.tab.cpp.o.d -o CMakeFiles/SLNParse.dir/sln.tab.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/sln.tab.cpp [ 21%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/External/rapidjson-1.1.0/include -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o -MF CMakeFiles/MolInterchange.dir/Writer.cpp.o.d -o CMakeFiles/MolInterchange.dir/Writer.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/Writer.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Node.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Node.cpp.o -MF CMakeFiles/CIPLabeler.dir/Node.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Node.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Node.cpp [ 21%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -MF CMakeFiles/SLNParse.dir/lex.yysln.cpp.o.d -o CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/lex.yysln.cpp [ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o -MF CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesWrite.cpp [ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o -MF CMakeFiles/CIPLabeler.dir/Edge.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Edge.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Edge.cpp [ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Sort.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Sort.cpp.o -MF CMakeFiles/CIPLabeler.dir/Sort.cpp.o.d -o CMakeFiles/CIPLabeler.dir/Sort.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Sort.cpp [ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS 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cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake "--color=" rdChemicalFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 22%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o cd 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o -MF CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o.d -o CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp [ 22%] Linking CXX shared library ../../../lib/libRDKitSLNParse.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SLNParse.dir/link.txt --verbose=1 [ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake "--color=" SubstructMatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 22%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructUtils.cpp [ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o -MF CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o.d -o CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp [ 22%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -MF CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o.d -o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp [ 22%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolInterchange.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MolInterchange.dir/link.d -Wl,-soname,libRDKitMolInterchange.so.1 -o ../../../lib/libRDKitMolInterchange.so.1.2025.03.6 CMakeFiles/MolInterchange.dir/Parser.cpp.o CMakeFiles/MolInterchange.dir/Writer.cpp.o ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolInterchange.so.1.2025.03.6 ../../../lib/libRDKitMolInterchange.so.1 ../../../lib/libRDKitMolInterchange.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 22%] Built target MolInterchange [ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CanonicalizeStereoGroups.cpp.o -MF CMakeFiles/SmilesParse.dir/CanonicalizeStereoGroups.cpp.o.d -o CMakeFiles/SmilesParse.dir/CanonicalizeStereoGroups.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/CanonicalizeStereoGroups.cpp [ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o -MF CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o.d -o CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp [ 23%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o -MF CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o.d -o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdTrajectory.cpp make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake "--color=" Optimizer make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 23%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -MF CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o.d -o CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Numerics/Optimizer/BFGSOpt.cpp [ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesJSONParsers.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesJSONParsers.cpp.o -MF CMakeFiles/SmilesParse.dir/SmilesJSONParsers.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmilesJSONParsers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesJSONParsers.cpp [ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/AtropisomerBond.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK 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-o CMakeFiles/CIPLabeler.dir/configs/AtropisomerBond.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.cpp [ 23%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -MF CMakeFiles/Optimizer.dir/LinearSearch.cpp.o.d -o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Numerics/Optimizer/LinearSearch.cpp [ 23%] Linking CXX shared library ../../../lib/libRDKitSubstructMatch.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructMatch.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat 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cmake_symlink_library ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1 ../../../lib/libRDKitSubstructMatch.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 23%] Built target SubstructMatch [ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp [ 24%] Linking CXX shared module ../../../rdkit/Chem/rdtrajectory.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdtrajectory.dir/link.txt --verbose=1 [ 24%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so cd 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule2.cpp [ 25%] Linking CXX shared library ../../../lib/libRDKitOptimizer.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/Optimizer.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time 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-Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o -MF CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o.d -o CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/smiles.tab.cpp [ 26%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o -MF CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o.d -o CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/lex.yysmarts.cpp [ 26%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB 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/usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o -MF CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o.d -o CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp [ 27%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o -MF CMakeFiles/ForceField.dir/ForceField.cpp.o.d -o CMakeFiles/ForceField.dir/ForceField.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/ForceField.cpp [ 27%] Linking CXX shared library ../../../lib/libRDKitSmilesParse.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SmilesParse.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1 ../../../lib/libRDKitSmilesParse.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 27%] Built target SmilesParse make -f Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Wrap 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Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o -MF CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o.d -o CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Wrap/rdCIPLabeler.cpp [ 27%] Linking CXX shared module ../../../../rdkit/Chem/rdSLNParse.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSLNParse.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 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Code/ForceField/CMakeFiles/ForceField.dir/AngleConstraint.cpp.o -MF CMakeFiles/ForceField.dir/AngleConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/AngleConstraint.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraint.cpp [ 27%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolTransforms.dir/link.txt --verbose=1 [ 27%] Linking CXX shared library ../../../lib/libRDKitShapeHelpers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -MF CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o.d -o CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ShapeHelpers.dir/link.d -Wl,-soname,libRDKitShapeHelpers.so.1 -o ../../../lib/libRDKitShapeHelpers.so.1.2025.03.6 CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitShapeHelpers.so.1.2025.03.6 ../../../lib/libRDKitShapeHelpers.so.1 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o -MF CMakeFiles/testSLNParse.dir/test.cpp.o.d -o CMakeFiles/testSLNParse.dir/test.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/test.cpp [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/AngleConstraints.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/AngleConstraints.cpp.o -MF CMakeFiles/ForceField.dir/AngleConstraints.cpp.o.d -o CMakeFiles/ForceField.dir/AngleConstraints.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.cpp [ 28%] Linking CXX executable testOptimizer cd 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28%] Linking CXX shared module ../../../../rdkit/Chem/rdCIPLabeler.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCIPLabeler.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdCIPLabeler.dir/link.d -o ../../../../rdkit/Chem/rdCIPLabeler.so CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o ../../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 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-DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -MF CMakeFiles/graphmolcpTest.dir/cptest.cpp.o.d -o CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/cptest.cpp [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/DistanceConstraint.cpp.o cd 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-Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolCatalog.dir/link.d -o ../../../../rdkit/Chem/rdMolCatalog.so CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o ../../../../lib/libRDKitMolCatalog.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../../lib/libRDKitCatalogs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 28%] Built target rdMolCatalog [ 28%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o cd 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-fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o -MF CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o.d -o CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/AbbreviationsUtils.cpp [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o -MF CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o.d -o CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraints.cpp [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/PositionConstraint.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/PositionConstraint.cpp.o -MF CMakeFiles/ForceField.dir/PositionConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/PositionConstraint.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/PositionConstraint.cpp [ 28%] Linking CXX shared library ../../../lib/libRDKitReducedGraphs.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ReducedGraphs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ReducedGraphs.dir/link.d -Wl,-soname,libRDKitReducedGraphs.so.1 -o ../../../lib/libRDKitReducedGraphs.so.1.2025.03.6 CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitReducedGraphs.so.1.2025.03.6 ../../../lib/libRDKitReducedGraphs.so.1 ../../../lib/libRDKitReducedGraphs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 28%] Built target ReducedGraphs make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make 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Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -MF CMakeFiles/graphmolIterTest.dir/itertest.cpp.o.d -o CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/itertest.cpp [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/TorsionConstraint.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK 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/build/reproducible-path/rdkit-202503.6/Code/ForceField/TorsionConstraint.cpp [ 28%] Linking CXX executable graphmolcpTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolcpTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/graphmolcpTest.dir/link.d CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -o graphmolcpTest ../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 28%] Built target graphmolcpTest make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake "--color=" 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -MF CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o.d -o CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/memtest1.cpp [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -MF CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/AngleBend.cpp [ 28%] Linking CXX shared library ../../../lib/libRDKitAbbreviations.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_link_script CMakeFiles/Abbreviations.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/Abbreviations.dir/link.d -Wl,-soname,libRDKitAbbreviations.so.1 -o ../../../lib/libRDKitAbbreviations.so.1.2025.03.6 CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAbbreviations.so.1.2025.03.6 ../../../lib/libRDKitAbbreviations.so.1 ../../../lib/libRDKitAbbreviations.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 28%] Built target Abbreviations [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -MF CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/BondStretch.cpp [ 28%] Linking CXX shared library ../../../lib/libRDKitMolAlign.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolAlign.dir/link.txt --verbose=1 [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Nonbonded.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MolAlign.dir/link.d -Wl,-soname,libRDKitMolAlign.so.1 -o ../../../lib/libRDKitMolAlign.so.1.2025.03.6 CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolAlign.so.1 ../../../lib/libRDKitMolAlign.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 28%] Built target MolAlign make -f Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu 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-DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o -MF CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o.d -o CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_moliterators.cpp [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 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--verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/graphmolIterTest.dir/link.d CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -o graphmolIterTest ../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 28%] Built target graphmolIterTest [ 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-DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -MF CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o.d -o CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_molbundle.cpp [ 28%] Linking CXX executable graphmolMemTest1 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script 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-fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Params.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Params.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Params.cpp [ 29%] Linking CXX executable moliteratorTestsCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/moliteratorTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/moliteratorTestsCatch.dir/link.d 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-D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o -MF CMakeFiles/FilterCatalog.dir/Filters.cpp.o.d -o CMakeFiles/FilterCatalog.dir/Filters.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/Filters.cpp [ 29%] Linking CXX executable queryTestsCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/queryTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/Utils.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Utils.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Utils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Utils.cpp [ 29%] Linking CXX executable smiTest2 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterCatalog.cpp [ 30%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o -MF 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../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 30%] Built target graphmolqueryTest [ 30%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/BondStretch.cpp [ 31%] Linking CXX executable testSLNParse cd 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../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 31%] Built target testSLNParse [ 31%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION 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/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -MF CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o.d -o CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganFingerprints.cpp [ 31%] Linking CXX executable molbundleTestsCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molbundleTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/molbundleTestsCatch.dir/link.d CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -o molbundleTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 31%] Built target molbundleTestsCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/DependInfo.cmake "--color=" v2smiTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 31%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/v2catch_tests.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/StretchBend.cpp [ 31%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD 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CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/StretchBend.cpp: In function ‘std::pair ForceFields::MMFF::Utils::calcStbnForceConstants(const ForceFields::MMFF::MMFFStbn*)’: /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/StretchBend.cpp:23:35: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 23 | const MMFFStbn *mmffStbnParams) { | ^ [ 31%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/AtomPairs.cpp make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake "--color=" testSubgraphs1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/test1.cpp.o -MF CMakeFiles/testSubgraphs1.dir/test1.cpp.o.d -o CMakeFiles/testSubgraphs1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/test1.cpp [ 31%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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-I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/test2.cpp.o -MF CMakeFiles/testSubgraphs2.dir/test2.cpp.o.d -o CMakeFiles/testSubgraphs2.dir/test2.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/test2.cpp [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/test1.cpp.o -MF CMakeFiles/testPartialCharges.dir/test1.cpp.o.d -o CMakeFiles/testPartialCharges.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/test1.cpp [ 34%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MHFP.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o -MF CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o.d -o CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp [ 35%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatGenerator.cpp [ 35%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp [ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp [ 35%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -MF CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o.d -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp [ 35%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -MF CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o.d -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.cpp [ 36%] Linking CXX shared library ../../lib/libRDKitForceField.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceField.dir/link.txt --verbose=1 [ 36%] Linking CXX shared library ../../../lib/libRDKitFilterCatalog.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FilterCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ForceField.dir/link.d -Wl,-soname,libRDKitForceField.so.1 -o ../../lib/libRDKitForceField.so.1.2025.03.6 CMakeFiles/ForceField.dir/ForceField.cpp.o CMakeFiles/ForceField.dir/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/AngleConstraints.cpp.o CMakeFiles/ForceField.dir/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o CMakeFiles/ForceField.dir/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o CMakeFiles/ForceField.dir/UFF/Inversions.cpp.o CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o CMakeFiles/ForceField.dir/UFF/Params.cpp.o CMakeFiles/ForceField.dir/UFF/Utils.cpp.o CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o ../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitForceField.so.1.2025.03.6 ../../lib/libRDKitForceField.so.1 ../../lib/libRDKitForceField.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/FilterCatalog.dir/link.d -Wl,-soname,libRDKitFilterCatalog.so.1 -o ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 CMakeFiles/FilterCatalog.dir/Filters.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1 ../../../lib/libRDKitFilterCatalog.so [ 36%] Built target ForceField [ 36%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -MF CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o.d -o CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp [ 36%] Built target FilterCatalog [ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp [ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.cpp make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake "--color=" testReducedGraphs make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 36%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o -MF 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-I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatParams.cpp [ 36%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB 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Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o -MF CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragFPGenerator.cpp [ 36%] Linking CXX shared module ../../../../rdkit/Chem/rdShapeHelpers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv 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-I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -MF CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o.d -o CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp [ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o cd 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-D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp [ 36%] Linking CXX executable testReducedGraphs cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReducedGraphs.dir/link.txt --verbose=1 [ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS 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../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 36%] Built target testReducedGraphs make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu 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-DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o -MF CMakeFiles/Depictor.dir/RDDepictor.cpp.o.d -o CMakeFiles/Depictor.dir/RDDepictor.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/RDDepictor.cpp [ 36%] Linking CXX shared library ../../../lib/libRDKitFragCatalog.so cd 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../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFragCatalog.so.1.2025.03.6 ../../../lib/libRDKitFragCatalog.so.1 ../../../lib/libRDKitFragCatalog.so [ 36%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake 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-DRDK_USE_STRICT_ROTOR_DEFINITION -DrdCoordGen_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -MF CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o.d -o CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/CoordGen/Wrap/rdCoordGen.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong 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../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolChemicalFeatures.so.1.2025.03.6 ../../../lib/libRDKitMolChemicalFeatures.so.1 ../../../lib/libRDKitMolChemicalFeatures.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 37%] Built target MolChemicalFeatures make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 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-DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.cpp [ 37%] Linking CXX shared module ../../../../rdkit/Chem/rdReducedGraphs.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdReducedGraphs.dir/link.txt --verbose=1 [ 37%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -c 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../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 37%] Built target rdReducedGraphs [ 37%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp [ 37%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 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-D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o -MF CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o.d -o CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.cpp [ 37%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp: In function ‘void RDKit::MMFF::Tools::addStretchBend(const RDKit::ROMol&, RDKit::MMFF::MMFFMolProperties*, ForceFields::ForceField*)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp:373:68: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 373 | MMFF::Utils::calcStbnForceConstants(&mmffStbnParams); | ^ make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake "--color=" rdMolChemicalFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 37%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o cd 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-Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp [ 37%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -MF CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o.d -o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp [ 37%] Linking CXX shared library ../../../lib/libRDKitFingerprints.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/Fingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard 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../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1 ../../../lib/libRDKitFingerprints.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 37%] Built target Fingerprints [ 37%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp [ 37%] Linking CXX shared module ../../../rdkit/Chem/rdCoordGen.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCoordGen.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdCoordGen.dir/link.d -o ../../../rdkit/Chem/rdCoordGen.so CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 -ldl /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 37%] Built target rdCoordGen make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap 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-DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFingerprintGenerator_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 37%] Built target rdAbbreviations [ 38%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp [ 38%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 38%] Built target rdMolChemicalFeatures [ 38%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/Templates.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/Templates.cpp.o -MF CMakeFiles/Depictor.dir/Templates.cpp.o.d -o CMakeFiles/Depictor.dir/Templates.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/Templates.cpp [ 38%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ForceFieldHelpers.dir/link.d -Wl,-soname,libRDKitForceFieldHelpers.so.1 -o ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleContribs.cpp.o ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../lib/libRDKitForceFieldHelpers.so.1 ../../../lib/libRDKitForceFieldHelpers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 38%] Built target ForceFieldHelpers make -f Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/build.make Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/depend make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/ForceField /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/DependInfo.cmake "--color=" ForceFieldsCatch make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/DistGeom /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake "--color=" DistGeometry make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/build.make Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 38%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -MF CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o.d -o CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DistGeom/DistGeomUtils.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o -MF CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/catch_tests.cpp make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/ForceField/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake "--color=" rdForceField make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 38%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceField_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o -MF CMakeFiles/rdForceField.dir/ForceField.cpp.o.d -o CMakeFiles/rdForceField.dir/ForceField.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/Wrap/ForceField.cpp In file included from /usr/include/c++/15/string:56, from /usr/include/boost/assert/source_location.hpp:15, from /usr/include/boost/exception/exception.hpp:9, from /usr/include/boost/throw_exception.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:16, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:11: In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘ValueT boost::python::stl_input_iterator::dereference() const [with ValueT = std::__cxx11::basic_string]’ at /usr/include/boost/python/stl_iterator.hpp:48:61, inlined from ‘static typename Facade::reference boost::iterators::iterator_core_access::dereference(const Facade&) [with Facade = boost::python::stl_input_iterator >]’ at /usr/include/boost/iterator/iterator_facade.hpp:631:32, inlined from ‘boost::iterators::detail::iterator_facade_base::reference boost::iterators::detail::iterator_facade_base::operator*() const [with Derived = boost::python::stl_input_iterator >; Value = std::__cxx11::basic_string; CategoryOrTraversal = std::input_iterator_tag; Reference = std::__cxx11::basic_string; Difference = long int]’ at /usr/include/boost/iterator/iterator_facade.hpp:737:69, inlined from ‘constexpr void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator >; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]’ at /usr/include/c++/15/bits/stl_vector.h:1957:21, inlined from ‘constexpr std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::python::stl_input_iterator >; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]’ at /usr/include/c++/15/bits/stl_vector.h:751:23, inlined from ‘std::vector RDKit::MHFPWrapper::ListToVector(const boost::python::api::object&) [with T = std::__cxx11::basic_string]’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:28:56: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ In file included from /usr/include/boost/python.hpp:66: /usr/include/boost/python/stl_iterator.hpp: In function ‘std::vector RDKit::MHFPWrapper::ListToVector(const boost::python::api::object&) [with T = std::__cxx11::basic_string]’: /usr/include/boost/python/stl_iterator.hpp:48:16: note: ‘’ declared here 48 | return extract(this->impl_.current().get())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘ValueT boost::python::stl_input_iterator::dereference() const [with ValueT = std::__cxx11::basic_string]’ at /usr/include/boost/python/stl_iterator.hpp:48:61, inlined from ‘static typename Facade::reference boost::iterators::iterator_core_access::dereference(const Facade&) [with Facade = boost::python::stl_input_iterator >]’ at /usr/include/boost/iterator/iterator_facade.hpp:631:32, inlined from ‘boost::iterators::detail::iterator_facade_base::reference boost::iterators::detail::iterator_facade_base::operator*() const [with Derived = boost::python::stl_input_iterator >; Value = std::__cxx11::basic_string; CategoryOrTraversal = std::input_iterator_tag; Reference = std::__cxx11::basic_string; Difference = long int]’ at /usr/include/boost/iterator/iterator_facade.hpp:737:69, inlined from ‘constexpr void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::python::stl_input_iterator >; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]’ at /usr/include/c++/15/bits/stl_vector.h:1957:21, inlined from ‘constexpr std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::python::stl_input_iterator >; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]’ at /usr/include/c++/15/bits/stl_vector.h:751:23, inlined from ‘std::vector RDKit::MHFPWrapper::ListToVector(const boost::python::api::object&) [with T = std::__cxx11::basic_string]’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:28:56: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /usr/include/boost/python/stl_iterator.hpp: In function ‘std::vector RDKit::MHFPWrapper::ListToVector(const boost::python::api::object&) [with T = std::__cxx11::basic_string]’: /usr/include/boost/python/stl_iterator.hpp:48:16: note: ‘’ declared here 48 | return extract(this->impl_.current().get())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 39%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -MF CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o.d -o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DistGeom/TriangleSmooth.cpp [ 40%] Linking CXX executable ForceFieldsCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ForceFieldsCatch.dir/link.d CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o -o ForceFieldsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../lib/libRDKitForceField.so.1.2025.03.6 ../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../lib/libRDKitSmilesParse.so.1.2025.03.6 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.dir/MIFDescriptors.cpp.o -MF CMakeFiles/MolInteractionFields.dir/MIFDescriptors.cpp.o.d -o CMakeFiles/MolInteractionFields.dir/MIFDescriptors.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/MIFDescriptors.cpp [ 40%] Linking CXX shared module ../../../../rdkit/Chem/rdMHFPFingerprint.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMHFPFingerprint.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 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[ 40%] Linking CXX shared library ../../../lib/libRDKitDepictor.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/Depictor.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/Depictor.dir/link.d -Wl,-soname,libRDKitDepictor.so.1 -o ../../../lib/libRDKitDepictor.so.1.2025.03.6 CMakeFiles/Depictor.dir/RDDepictor.cpp.o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o CMakeFiles/Depictor.dir/DepictUtils.cpp.o CMakeFiles/Depictor.dir/Templates.cpp.o /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 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target Depictor make -f External/INCHI-API/CMakeFiles/RDInchiLib.dir/build.make External/INCHI-API/CMakeFiles/RDInchiLib.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/External/INCHI-API /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API/CMakeFiles/RDInchiLib.dir/DependInfo.cmake "--color=" RDInchiLib make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd 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-isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/INCHI-API/CMakeFiles/RDInchiLib.dir/inchi.cpp.o -MF CMakeFiles/RDInchiLib.dir/inchi.cpp.o.d -o CMakeFiles/RDInchiLib.dir/inchi.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/INCHI-API/inchi.cpp [ 41%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK 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/usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -MF CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o.d -o CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp [ 41%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong 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cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake "--color=" MolHash make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 41%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/hashfunctions.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o -MF CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o.d -o CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp [ 41%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 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../../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 41%] Built target rdForceFieldHelpers [ 41%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/MolFragmenter.cpp [ 41%] Linking CXX shared library ../../../lib/libRDKitMolInteractionFields.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolInteractionFields.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MolInteractionFields.dir/link.d -Wl,-soname,libRDKitMolInteractionFields.so.1 -o ../../../lib/libRDKitMolInteractionFields.so.1.2025.03.6 CMakeFiles/MolInteractionFields.dir/MIFDescriptors.cpp.o 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-Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -MF CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o.d -o CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DistGeom/testDistGeom.cpp [ 42%] Linking CXX shared library ../../lib/libRDKitRDInchiLib.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDInchiLib.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libinchi.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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-mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o -MF CMakeFiles/DistGeom.dir/DistGeom.cpp.o.d -o CMakeFiles/DistGeom.dir/DistGeom.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DistGeom/Wrap/DistGeom.cpp [ 42%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/normalize.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/normalize.cpp.o -MF CMakeFiles/MolHash.dir/normalize.cpp.o.d -o CMakeFiles/MolHash.dir/normalize.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/normalize.cpp [ 42%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap && /usr/bin/cmake -E cmake_link_script 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/usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.dir/rdMIF.cpp.o -MF CMakeFiles/rdMIF.dir/rdMIF.cpp.o.d -o CMakeFiles/rdMIF.dir/rdMIF.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/Wrap/rdMIF.cpp [ 42%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenterJSONParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB 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target rdfiltercatalog make -f External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build.make External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/External/INCHI-API/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/DependInfo.cmake "--color=" rdinchi make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build.make External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 43%] Building CXX object External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/pyInchi.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdinchi_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/pyInchi.cpp.o -MF CMakeFiles/rdinchi.dir/pyInchi.cpp.o.d -o CMakeFiles/rdinchi.dir/pyInchi.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/INCHI-API/Wrap/pyInchi.cpp [ 43%] Linking CXX shared module ../../../rdkit/DistanceGeometry/DistGeom.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat 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library ../../../lib/libRDKitMolHash.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolHash.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MolHash.dir/link.d -Wl,-soname,libRDKitMolHash.so.1 -o ../../../lib/libRDKitMolHash.so.1.2025.03.6 CMakeFiles/MolHash.dir/hashfunctions.cpp.o CMakeFiles/MolHash.dir/normalize.cpp.o ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolHash.so.1.2025.03.6 ../../../lib/libRDKitMolHash.so.1 ../../../lib/libRDKitMolHash.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 43%] Built target MolHash make -f 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 43%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolHash_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o -MF CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o.d -o CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp [ 43%] Linking CXX shared module ../../../rdkit/Chem/rdinchi.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdinchi.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libinchi.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 43%] Built target rdinchi [ 43%] Linking CXX shared module ../../../../rdkit/Chem/rdMolHash.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolHash.dir/link.txt --verbose=1 [ 43%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeomHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolHash.dir/link.d -o ../../../../rdkit/Chem/rdMolHash.so CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o ../../../../lib/libRDKitMolHash.so.1.2025.03.6 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 43%] Built target rdMolHash /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/DistGeomHelpers.dir/link.d -Wl,-soname,libRDKitDistGeomHelpers.so.1 -o ../../../lib/libRDKitDistGeomHelpers.so.1.2025.03.6 CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitDistGeometry.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDistGeomHelpers.so.1.2025.03.6 ../../../lib/libRDKitDistGeomHelpers.so.1 ../../../lib/libRDKitDistGeomHelpers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 43%] Built target DistGeomHelpers [ 43%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ChemTransforms.dir/link.d -Wl,-soname,libRDKitChemTransforms.so.1 -o ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenterJSONParser.cpp.o ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_symlink_library 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FileParsers make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o [ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -MF CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/Mol2FileParser.cpp [ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o [ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o -MF CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o.d -o CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSGroupWriting.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o -MF CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o.d -o CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/CDXMLParser.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/MolFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/MolFileParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolFileParser.cpp [ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o [ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SCSRMolFileParser.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -MF CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o.d -o CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSGroupParsing.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -MF CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o.d -o CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolFileStereochem.cpp [ 44%] Linking CXX shared module ../../../../rdkit/Chem/rdMIF.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMIF.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMIF.dir/link.d -o ../../../../rdkit/Chem/rdMIF.so CMakeFiles/rdMIF.dir/rdMIF.cpp.o ../../../../lib/libRDKitMolInteractionFields.so.1.2025.03.6 ../../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 -ldl /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 44%] Built target rdMIF [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -MF CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolFileWriter.cpp [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ 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-I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SDMolSupplier.cpp [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB 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CMakeFiles/FileParsers.dir/SDWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/SDWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SDWriter.cpp [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SmilesWriter.cpp [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/TDTMolSupplier.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o -MF CMakeFiles/FileParsers.dir/TDTWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/TDTWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/TDTWriter.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/TplFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/TplFileParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/TplFileParser.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -MF CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/TplFileWriter.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && 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Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o -MF CMakeFiles/FileParsers.dir/PDBParser.cpp.o.d -o CMakeFiles/FileParsers.dir/PDBParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/PDBParser.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -MF CMakeFiles/FileParsers.dir/PDBWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/PDBWriter.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CMLWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/CMLWriter.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o -MF CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/XYZFileWriter.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/XYZFileParser.cpp [ 45%] Building CXX object 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-D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MaeMolSupplier.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeWriter.cpp.o -MF CMakeFiles/FileParsers.dir/MaeWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/MaeWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MaeWriter.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o -MF CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o.d -o CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/ProximityBonds.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o -MF CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o.d -o CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SequenceParsers.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o -MF CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o.d -o CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SequenceWriters.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o -MF CMakeFiles/FileParsers.dir/SVGParser.cpp.o.d -o CMakeFiles/FileParsers.dir/SVGParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SVGParser.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o -MF CMakeFiles/FileParsers.dir/PNGParser.cpp.o.d -o CMakeFiles/FileParsers.dir/PNGParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/PNGParser.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedMolSupplier.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.cpp [ 46%] Linking CXX shared library ../../../lib/libRDKitFileParsers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/FileParsers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/FileParsers.dir/link.d -Wl,-soname,libRDKitFileParsers.so.1 -o ../../../lib/libRDKitFileParsers.so.1.2025.03.6 CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o CMakeFiles/FileParsers.dir/MolFileParser.cpp.o CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o CMakeFiles/FileParsers.dir/SDWriter.cpp.o CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o CMakeFiles/FileParsers.dir/TDTWriter.cpp.o CMakeFiles/FileParsers.dir/TplFileParser.cpp.o CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o CMakeFiles/FileParsers.dir/PDBParser.cpp.o CMakeFiles/FileParsers.dir/PDBWriter.cpp.o CMakeFiles/FileParsers.dir/CMLWriter.cpp.o CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o CMakeFiles/FileParsers.dir/MaeWriter.cpp.o CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o CMakeFiles/FileParsers.dir/SVGParser.cpp.o CMakeFiles/FileParsers.dir/PNGParser.cpp.o CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1 ../../../lib/libRDKitFileParsers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 46%] Built target FileParsers make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/depend make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/External/CoordGen /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake "--color=" testCoordGen make -f 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/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/MMFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake "--color=" testMMFFForceField make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake "--color=" graphmolTest1 make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake "--color=" graphmolMolOpsTest make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake "--color=" graphmoltestChirality make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake "--color=" graphmoltestPickler make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake "--color=" graphmoltestPicklerGlobalSetting make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build [ 46%] Building CXX object Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/UFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -MF CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o.d -o CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/testUFFForceField.cpp make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 46%] Building CXX object Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o [ 47%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build [ 47%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o [ 47%] Building CXX object External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -MF CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o.d -o CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/molopstest.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o -MF CMakeFiles/graphmolTest1.dir/test1.cpp.o.d -o CMakeFiles/graphmolTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/test1.cpp make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o -MF CMakeFiles/testCoordGen.dir/test.cpp.o.d -o CMakeFiles/testCoordGen.dir/test.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/CoordGen/test.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/MMFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time 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../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../lib/libRDKitAlignment.so.1.2025.03.6 ../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 -ldl /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 49%] Built target testCoordGen make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o -MF CMakeFiles/testSGroup.dir/testSGroup.cpp.o.d -o CMakeFiles/testSGroup.dir/testSGroup.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/testSGroup.cpp [ 49%] Linking CXX executable hanoiTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/hanoiTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o -MF CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o.d -o CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_organometallics.cpp [ 49%] Linking CXX executable graphmolTest1 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 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-DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -MF CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o.d -o CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_sgroups.cpp [ 49%] Linking CXX executable graphmoltestPickler cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/graphmoltestPickler.dir/link.d CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -o graphmoltestPickler ../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../lib/libRDKitAlignment.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 49%] Built target graphmoltestPickler make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make 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Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -MF CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o.d -o CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_adjustquery.cpp [ 49%] Linking CXX executable test-valgrind cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-valgrind.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard 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/usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 49%] Built target test-valgrind make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/DependInfo.cmake "--color=" chiralityTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -MF CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o.d -o CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_chirality.cpp [ 49%] Linking CXX executable graphmolOrganometallicsCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolOrganometallicsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/graphmolOrganometallicsCatch.dir/link.d CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o -o graphmolOrganometallicsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../lib/libRDKitAlignment.so.1.2025.03.6 ../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 49%] Built target graphmolOrganometallicsCatch make -f Code/GraphMol/CMakeFiles/canonTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/canonTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol 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-DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o -MF CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o.d -o CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_canon.cpp [ 49%] Linking CXX executable graphmolSGroupCatch cd 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/catch_tests.cpp.o -MF CMakeFiles/depictorCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/depictorCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/catch_tests.cpp [ 52%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PNGParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/DependInfo.cmake "--color=" testSquiggleDoubleBonds make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/testSquiggleDoubleBonds.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/testSquiggleDoubleBonds.cpp.o -MF CMakeFiles/testSquiggleDoubleBonds.dir/testSquiggleDoubleBonds.cpp.o.d -o CMakeFiles/testSquiggleDoubleBonds.dir/testSquiggleDoubleBonds.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testSquiggleDoubleBonds.cpp [ 52%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o -MF CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/CDXMLParser.cpp make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake "--color=" testMolSupplier make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -MF CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o.d -o CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testMolSupplier.cpp [ 52%] Linking CXX executable graphmolMolOpsTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMolOpsTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/graphmolMolOpsTest.dir/link.d CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -o graphmolMolOpsTest ../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../lib/libRDKitAlignment.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 52%] Built target graphmolMolOpsTest make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/DependInfo.cmake "--color=" testGeneralFileReader make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -MF CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o.d -o CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testGeneralFileReader.cpp [ 52%] Linking CXX executable smiTestCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/smiTestCatch.dir/link.d CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -o smiTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 52%] Built target smiTestCatch make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/DependInfo.cmake "--color=" testMultithreadedMolSupplier make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o -MF CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o.d -o CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testMultithreadedMolSupplier.cpp [ 53%] Linking CXX executable testSquiggleDoubleBonds cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSquiggleDoubleBonds.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testSquiggleDoubleBonds.dir/link.d CMakeFiles/testSquiggleDoubleBonds.dir/testSquiggleDoubleBonds.cpp.o -o testSquiggleDoubleBonds ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 53%] Built target testSquiggleDoubleBonds make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake "--color=" testMolWriter make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -MF CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o.d -o CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testMolWriter.cpp [ 53%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -fpermissive -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp [ 53%] Linking CXX executable testAtropisomers cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAtropisomers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong 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/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake "--color=" testTplParser make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o -MF CMakeFiles/testTplParser.dir/testTpls.cpp.o.d -o CMakeFiles/testTplParser.dir/testTpls.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testTpls.cpp [ 54%] Linking CXX executable testGeneralFileReader cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGeneralFileReader.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testGeneralFileReader.dir/link.d CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -o testGeneralFileReader ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitRDStreams.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testGeneralFileReader make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -MF CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o.d -o CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testMol2ToMol.cpp [ 54%] Linking CXX executable testMultithreadedMolSupplier cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultithreadedMolSupplier.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing 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../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 -ldl /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testMultithreadedMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake "--color=" testSequence make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/testSequence.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/testSequence.cpp.o -MF CMakeFiles/testSequence.dir/testSequence.cpp.o.d -o CMakeFiles/testSequence.dir/testSequence.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testSequence.cpp [ 54%] Linking CXX executable testTplParser cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTplParser.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testTplParser.dir/link.d CMakeFiles/testTplParser.dir/testTpls.cpp.o -o testTplParser ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testTplParser make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -MF CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o.d -o CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testExtendedStereoParsing.cpp [ 54%] Linking CXX executable testMol2ToMol cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMol2ToMol.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 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../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testMol2ToMol make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 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/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSequence.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testSequence.dir/link.d CMakeFiles/testSequence.dir/testSequence.cpp.o -o testSequence ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testSequence make -f Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/DependInfo.cmake "--color=" macromolsCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/macromols_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/macromols_catch.cpp.o -MF CMakeFiles/macromolsCatchTest.dir/macromols_catch.cpp.o.d -o CMakeFiles/macromolsCatchTest.dir/macromols_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/macromols_catch.cpp [ 54%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.cpp [ 54%] Linking CXX executable depictorCatch cd 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../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target depictorCatch make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake "--color=" testPropertyLists make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -MF CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o.d -o CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/testPropertyLists.cpp [ 54%] Linking CXX executable testExtendedStereoParsing cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testExtendedStereoParsing.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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/usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testExtendedStereoParsing make -f Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/DependInfo.cmake "--color=" XYZFileParserCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS 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testMolWriter cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolWriter.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testMolWriter.dir/link.d CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -o testMolWriter ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testMolWriter [ 54%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.cpp [ 54%] Linking CXX executable testMolSupplier cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolSupplier.dir/link.txt --verbose=1 make -f Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake 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&& /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o -MF CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o.d -o CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/cdxml_parser_catch.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testMolSupplier.dir/link.d CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -o testMolSupplier ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitRDStreams.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/DependInfo.cmake "--color=" molfileStereoCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o -MF CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o.d -o CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/molfile_stereo_catch.cpp [ 55%] Linking CXX executable macromolsCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/macromolsCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/macromolsCatchTest.dir/link.d CMakeFiles/macromolsCatchTest.dir/macromols_catch.cpp.o -o macromolsCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target macromolsCatchTest make -f Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/DependInfo.cmake "--color=" connectTheDotsTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o -MF CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o.d -o CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/connectTheDots_catch.cpp [ 55%] Linking CXX executable XYZFileParserCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/XYZFileParserCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/XYZFileParserCatchTest.dir/link.d CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o -o XYZFileParserCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target XYZFileParserCatchTest make -f Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/DependInfo.cmake "--color=" v2MolSuppliers make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/v2_suppliers_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/v2_suppliers_catch.cpp.o -MF CMakeFiles/v2MolSuppliers.dir/v2_suppliers_catch.cpp.o.d -o CMakeFiles/v2MolSuppliers.dir/v2_suppliers_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/v2_suppliers_catch.cpp [ 55%] Linking CXX shared library ../../../lib/libRDKitChemReactions.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemReactions.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ChemReactions.dir/link.d -Wl,-soname,libRDKitChemReactions.so.1 -o ../../../lib/libRDKitChemReactions.so.1.2025.03.6 CMakeFiles/ChemReactions.dir/Reaction.cpp.o CMakeFiles/ChemReactions.dir/MDLParser.cpp.o CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o CMakeFiles/ChemReactions.dir/PNGParser.cpp.o CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1 ../../../lib/libRDKitChemReactions.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target ChemReactions make -f Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/DependInfo.cmake "--color=" v2FileParsersCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/v2_file_parsers_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/v2_file_parsers_catch.cpp.o -MF CMakeFiles/v2FileParsersCatchTest.dir/v2_file_parsers_catch.cpp.o.d -o CMakeFiles/v2FileParsersCatchTest.dir/v2_file_parsers_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/v2_file_parsers_catch.cpp [ 55%] Linking CXX executable molfileStereoCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/molfileStereoCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/molfileStereoCatchTest.dir/link.d CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o -o molfileStereoCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target molfileStereoCatchTest make -f Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/DependInfo.cmake "--color=" atropisomersCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/atropisomers_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/atropisomers_catch.cpp.o -MF CMakeFiles/atropisomersCatch.dir/atropisomers_catch.cpp.o.d -o CMakeFiles/atropisomersCatch.dir/atropisomers_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/atropisomers_catch.cpp [ 55%] Linking CXX executable connectTheDotsTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/connectTheDotsTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/connectTheDotsTest.dir/link.d CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o -o connectTheDotsTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target connectTheDotsTest make -f Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/DependInfo.cmake "--color=" multithreadedSupplierCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/multithreaded_supplier_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/multithreaded_supplier_catch.cpp.o -MF CMakeFiles/multithreadedSupplierCatchTest.dir/multithreaded_supplier_catch.cpp.o.d -o CMakeFiles/multithreadedSupplierCatchTest.dir/multithreaded_supplier_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/multithreaded_supplier_catch.cpp [ 55%] Linking CXX executable testPropertyLists cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPropertyLists.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testPropertyLists.dir/link.d CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -o testPropertyLists ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target testPropertyLists make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake "--color=" testSubstructMatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o -MF CMakeFiles/testSubstructMatch.dir/test1.cpp.o.d -o CMakeFiles/testSubstructMatch.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/test1.cpp [ 55%] Linking CXX executable cdxmlParserCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/cdxmlParserCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/cdxmlParserCatchTest.dir/link.d CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/catch_tests.cpp [ 55%] Linking CXX executable v2MolSuppliers cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/v2MolSuppliers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/v2MolSuppliers.dir/link.d CMakeFiles/v2MolSuppliers.dir/v2_suppliers_catch.cpp.o -o v2MolSuppliers ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake "--color=" testReaction make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/testReaction.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/testReaction.cpp.o -MF CMakeFiles/testReaction.dir/testReaction.cpp.o.d -o CMakeFiles/testReaction.dir/testReaction.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/testReaction.cpp [ 55%] Linking CXX executable v2FileParsersCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/v2FileParsersCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/v2FileParsersCatchTest.dir/link.d CMakeFiles/v2FileParsersCatchTest.dir/v2_file_parsers_catch.cpp.o -o v2FileParsersCatchTest 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directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target v2FileParsersCatchTest make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake "--color=" testReactionFingerprints make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -MF CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o.d -o CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/testReactionFingerprints.cpp [ 55%] Linking CXX executable atropisomersCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/atropisomersCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/atropisomersCatch.dir/link.d CMakeFiles/atropisomersCatch.dir/atropisomers_catch.cpp.o -o atropisomersCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake "--color=" testEnumeration make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -MF CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o.d -o CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp [ 55%] Linking CXX executable multithreadedSupplierCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/multithreadedSupplierCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/multithreadedSupplierCatchTest.dir/link.d CMakeFiles/multithreadedSupplierCatchTest.dir/multithreaded_supplier_catch.cpp.o -o multithreadedSupplierCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target multithreadedSupplierCatchTest make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake "--color=" rxnTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/catch_tests.cpp [ 55%] Linking CXX executable testReactionFingerprints cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReactionFingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testReactionFingerprints.dir/link.d CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -o testReactionFingerprints ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target testReactionFingerprints make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake "--color=" testChemTransforms make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -MF CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o.d -o CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/testChemTransforms.cpp [ 55%] Linking CXX executable testEnumeration cd 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-I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/catch_tests.cpp [ 55%] Linking CXX executable testSubstructMatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubstructMatch.dir/link.txt --verbose=1 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executable filterCatalogTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/filterCatalogTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/filterCatalogTest.dir/link.d CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -o filterCatalogTest ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 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Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o -MF CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o.d -o CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/MolStandardize.cpp [ 55%] Linking CXX executable testFragCatalog cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFragCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 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/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake "--color=" Descriptors make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Crippen.cpp [ 55%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o -MF CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o -MF CMakeFiles/MolStandardize.dir/Metal.cpp.o.d -o CMakeFiles/MolStandardize.dir/Metal.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Metal.cpp [ 55%] Linking CXX executable testChemTransforms cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testChemTransforms.dir/link.d CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -o 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target testChemTransforms make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake "--color=" testFingerprints make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f 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-I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/test1.cpp.o -MF CMakeFiles/testFingerprints.dir/test1.cpp.o.d -o CMakeFiles/testFingerprints.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/test1.cpp [ 55%] Linking CXX executable chemTransformsTestCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemTransformsTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 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../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target chemTransformsTestCatch [ 55%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o -MF 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-I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -MF CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o.d -o CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/testMHFPFingerprint.cpp [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o -MF CMakeFiles/MolStandardize.dir/Normalize.cpp.o.d -o CMakeFiles/MolStandardize.dir/Normalize.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Normalize.cpp [ 55%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o -MF CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/BCUT.cpp: In function ‘std::pair RDKit::Descriptors::{anonymous}::BCUT2D(std::unique_ptr >&, const std::vector&)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/BCUT.cpp:70:71: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 70 | const std::vector &atom_props) { | ^ [ 55%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolDescriptors.cpp [ 55%] Linking CXX executable testMHFPFingerprint cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMHFPFingerprint.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testMHFPFingerprint.dir/link.d CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -o testMHFPFingerprint ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target testMHFPFingerprint make -f 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/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -MF CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o.d -o CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp [ 55%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB 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../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Built target rxnTestCatch make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 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-I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -MF CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o cd 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-Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o -MF CMakeFiles/MolStandardize.dir/Validate.cpp.o.d -o CMakeFiles/MolStandardize.dir/Validate.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Validate.cpp [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o -MF CMakeFiles/MolStandardize.dir/Charge.cpp.o.d -o CMakeFiles/MolStandardize.dir/Charge.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Charge.cpp [ 55%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolSurf.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolSurf.cpp.o -MF CMakeFiles/Descriptors.dir/MolSurf.cpp.o.d -o CMakeFiles/Descriptors.dir/MolSurf.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolSurf.cpp [ 55%] Linking CXX shared module ../../../../rdkit/Chem/rdfragcatalog.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfragcatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdfragcatalog.dir/link.d -o ../../../../rdkit/Chem/rdfragcatalog.so CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o ../../../../lib/libRDKitFragCatalog.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 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/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.cpp.o -MF CMakeFiles/Descriptors.dir/Lipinski.cpp.o.d -o CMakeFiles/Descriptors.dir/Lipinski.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Lipinski.cpp [ 56%] Linking CXX executable fpTestCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard 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../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 56%] Built target fpTestCatch [ 56%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS 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Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -MF CMakeFiles/MolStandardize.dir/Tautomer.cpp.o.d -o CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Tautomer.cpp [ 56%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o -MF CMakeFiles/MolStandardize.dir/Fragment.cpp.o.d -o CMakeFiles/MolStandardize.dir/Fragment.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Fragment.cpp [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o.d -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.cpp [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB 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Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.cpp [ 57%] Linking CXX executable testFingerprintGenerators cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprintGenerators.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 57%] Built target testFingerprintGenerators [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp [ 57%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o -MF CMakeFiles/Descriptors.dir/MQN.cpp.o.d -o CMakeFiles/Descriptors.dir/MQN.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MQN.cpp [ 57%] Linking CXX executable testFingerprints cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time 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../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 57%] Built target testFingerprints [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o.d -o 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-I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.cpp [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o cd 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-I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.cpp [ 57%] Building CXX object 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-mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -MF CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o.d -o CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/AUTOCORR2D.cpp [ 57%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT 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-D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o -MF CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o.d -o CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/OxidationNumbers.cpp [ 60%] Linking CXX executable testReaction cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReaction.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake "--color=" testMMFFForceFieldHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 61%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o cd 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/usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 62%] Built target molTransformsTestCatch make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF 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-I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o -MF CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/catch_tests.cpp [ 62%] Linking CXX executable testMMFFForceFieldHelpersMultiThread cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/link.d CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o -o testMMFFForceFieldHelpersMultiThread ../../../../lib/libRDKitDistGeomHelpers.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../../lib/libRDKitDistGeometry.so.1.2025.03.6 ../../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../../lib/libRDKitOptimizer.so.1.2025.03.6 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -MF CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o.d -o CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/testMolAlign.cpp make -f Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 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/usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 62%] Built target testMMFFForceFieldHelpers make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures 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Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o -MF CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o.d -o CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/AUTOCORR3D.cpp [ 62%] Linking CXX executable testMolAlign cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolAlign.dir/link.txt --verbose=1 [ 62%] Linking CXX executable molAlignCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/molAlignCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. 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-mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/GETAWAY.cpp.o -MF CMakeFiles/Descriptors.dir/GETAWAY.cpp.o.d -o CMakeFiles/Descriptors.dir/GETAWAY.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/GETAWAY.cpp [ 65%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o -MF CMakeFiles/FMCS.dir/Seed.cpp.o.d -o CMakeFiles/FMCS.dir/Seed.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Seed.cpp [ 65%] Linking CXX executable testShapeHelpers cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ 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-DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o.d -o 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/usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 65%] Built target distGeomHelpersCatch [ 65%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DSVG.cpp [ 65%] Linking CXX executable testDistGeomHelpers cd 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/TargetMatch.cpp.o -MF CMakeFiles/FMCS.dir/TargetMatch.cpp.o.d -o CMakeFiles/FMCS.dir/TargetMatch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/TargetMatch.cpp [ 66%] Linking CXX executable testMolCatalog cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 66%] Built target testMolCatalog make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA 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-DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o -MF CMakeFiles/MMPA.dir/MMPA.cpp.o.d -o CMakeFiles/MMPA.dir/MMPA.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/MMPA.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/bits/stl_tree.h:65, from /usr/include/c++/15/map:64, from /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Dict.h:19, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h:16, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:16: /usr/include/c++/15/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:553:16: required from here 553 | make_pair(double(screen_cds.first), double(screen_cds.second))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 66%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -MF CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o.d -o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp [ 66%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o -MF CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o.d -o CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/SubstructMatchCustom.cpp [ 66%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o -MF CMakeFiles/Descriptors.dir/WHIM.cpp.o.d -o CMakeFiles/Descriptors.dir/WHIM.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/WHIM.cpp [ 66%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp [ 67%] Linking CXX shared library ../../../lib/libRDKitMMPA.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/MMPA.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MMPA.dir/link.d -Wl,-soname,libRDKitMMPA.so.1 -o ../../../lib/libRDKitMMPA.so.1.2025.03.6 CMakeFiles/MMPA.dir/MMPA.cpp.o ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMMPA.so.1.2025.03.6 ../../../lib/libRDKitMMPA.so.1 ../../../lib/libRDKitMMPA.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 67%] Built target MMPA [ 67%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code 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-fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o -MF CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o.d -o CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/AtomSymbol.cpp [ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o -MF CMakeFiles/Descriptors.dir/CoulombMat.cpp.o.d -o CMakeFiles/Descriptors.dir/CoulombMat.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/CoulombMat.cpp [ 67%] Linking CXX executable molHashCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script 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-D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalMCES.cpp [ 68%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED 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Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 68%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o -MF CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o.d -o CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.cpp [ 68%] Linking CXX shared library ../../../lib/libRDKitFMCS.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCS.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat 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../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFMCS.so.1.2025.03.6 ../../../lib/libRDKitFMCS.so.1 ../../../lib/libRDKitFMCS.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 68%] Built target FMCS [ 68%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o cd 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-Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalCluster.cpp [ 68%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp [ 68%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp [ 68%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawShape.cpp [ 68%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -MF CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o.d -o CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/PositionVariation.cpp [ 68%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalButinaCluster.cpp [ 68%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o -MF CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o.d -o CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/LinkNode.cpp [ 69%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o -MF CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o.d -o CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/RepeatUnit.cpp [ 70%] Linking CXX shared library ../../../lib/libRDKitDescriptors.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/Descriptors.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/Descriptors.dir/link.d -Wl,-soname,libRDKitDescriptors.so.1 -o ../../../lib/libRDKitDescriptors.so.1.2025.03.6 CMakeFiles/Descriptors.dir/Crippen.cpp.o CMakeFiles/Descriptors.dir/BCUT.cpp.o CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o CMakeFiles/Descriptors.dir/MolSurf.cpp.o CMakeFiles/Descriptors.dir/Lipinski.cpp.o CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o CMakeFiles/Descriptors.dir/MQN.cpp.o CMakeFiles/Descriptors.dir/Property.cpp.o CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o CMakeFiles/Descriptors.dir/AtomFeat.cpp.o CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o CMakeFiles/Descriptors.dir/DCLV.cpp.o CMakeFiles/Descriptors.dir/EEM.cpp.o CMakeFiles/Descriptors.dir/PBF.cpp.o CMakeFiles/Descriptors.dir/PMI.cpp.o CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o CMakeFiles/Descriptors.dir/RDF.cpp.o CMakeFiles/Descriptors.dir/MORSE.cpp.o CMakeFiles/Descriptors.dir/GETAWAY.cpp.o CMakeFiles/Descriptors.dir/WHIM.cpp.o CMakeFiles/Descriptors.dir/CoulombMat.cpp.o ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitDescriptors.so.1 ../../../lib/libRDKitDescriptors.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 70%] Built target Descriptors make -f Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/build.make Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/DependInfo.cmake "--color=" EnumerateStereoisomers make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/build.make Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 70%] Building CXX object Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/EnumerateStereoisomers.cpp.o cd 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-Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/EnumerateStereoisomers.cpp.o -MF CMakeFiles/EnumerateStereoisomers.dir/EnumerateStereoisomers.cpp.o.d -o CMakeFiles/EnumerateStereoisomers.dir/EnumerateStereoisomers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/EnumerateStereoisomers.cpp [ 70%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o -MF CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o.d -o CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/lap_a_la_scipy.cpp [ 70%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.cpp.o cd 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawText.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawText.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawText.cpp [ 70%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o -MF CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o.d -o CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/PartitionSet.cpp [ 70%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalResult.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_RASCALMCES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRascalMCES_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalResult.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalResult.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalResult.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalResult.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/string:53, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawText.h:19, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawText.cpp:13: /usr/include/c++/15/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawText.cpp:165:47: required from here 165 | tl = mol_draw.getAtomCoords(std::make_pair(tl.x, tl.y)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/DependInfo.cmake "--color=" Deprotect make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 70%] Building CXX object Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/Deprotect.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDeprotect_EXPORTS -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/Deprotect.cpp.o -MF CMakeFiles/Deprotect.dir/Deprotect.cpp.o.d -o CMakeFiles/Deprotect.dir/Deprotect.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/Deprotect.cpp [ 70%] Building CXX object Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DEnumerateStereoisomers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_ENUMERATESTEREOISOMERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o -MF CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o.d -o CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/Flippers.cpp [ 70%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextNotFT.cpp [ 70%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextSVG.cpp make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake "--color=" trajectoryTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 70%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB 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CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Trajectory/trajectoryTest.cpp [ 70%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DJS.cpp [ 70%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextJS.cpp [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DCairo.cpp [ 71%] Linking CXX shared library ../../../lib/libRDKitMolEnumerator.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolEnumerator.dir/link.txt --verbose=1 [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextCairo.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MolEnumerator.dir/link.d -Wl,-soname,libRDKitMolEnumerator.so.1 -o ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1 ../../../lib/libRDKitMolEnumerator.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Built target MolEnumerator [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFT.cpp [ 71%] Linking CXX shared library ../../../lib/libRDKitEnumerateStereoisomers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/cmake -E cmake_link_script CMakeFiles/EnumerateStereoisomers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/EnumerateStereoisomers.dir/link.d -Wl,-soname,libRDKitEnumerateStereoisomers.so.1 -o ../../../lib/libRDKitEnumerateStereoisomers.so.1.2025.03.6 CMakeFiles/EnumerateStereoisomers.dir/EnumerateStereoisomers.cpp.o CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitDistGeomHelpers.so.1.2025.03.6 ../../../lib/libRDKitDistGeometry.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitEnumerateStereoisomers.so.1.2025.03.6 ../../../lib/libRDKitEnumerateStereoisomers.so.1 ../../../lib/libRDKitEnumerateStereoisomers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Built target EnumerateStereoisomers make -f Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/build.make Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DetermineBonds /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/DependInfo.cmake "--color=" DetermineBonds make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/build.make Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Building CXX object Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/DetermineBonds.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDetermineBonds_EXPORTS -DRDKIT_DETERMINEBONDS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/DetermineBonds.cpp.o -MF CMakeFiles/DetermineBonds.dir/DetermineBonds.cpp.o.d -o CMakeFiles/DetermineBonds.dir/DetermineBonds.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DetermineBonds/DetermineBonds.cpp [ 71%] Linking CXX shared library ../../../lib/libRDKitDeprotect.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_link_script CMakeFiles/Deprotect.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/Deprotect.dir/link.d -Wl,-soname,libRDKitDeprotect.so.1 -o ../../../lib/libRDKitDeprotect.so.1.2025.03.6 CMakeFiles/Deprotect.dir/Deprotect.cpp.o ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDeprotect.so.1.2025.03.6 ../../../lib/libRDKitDeprotect.so.1 ../../../lib/libRDKitDeprotect.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Built target Deprotect make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake "--color=" molInterchangeTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ 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-I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTSVG.cpp [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o cd 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTJS.cpp make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange 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-DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/External/rapidjson-1.1.0/include -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o -MF 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Built target trajectoryTest make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake "--color=" rdmolops make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o -MF CMakeFiles/rdmolops.dir/rdmolops.cpp.o.d -o CMakeFiles/rdmolops.dir/rdmolops.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdmolops.cpp [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o cd 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTCairo.cpp make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize 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-I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o -MF CMakeFiles/rdmolops.dir/MolOps.cpp.o.d -o CMakeFiles/rdmolops.dir/MolOps.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/MolOps.cpp [ 72%] Linking CXX shared library ../../../lib/libRDKitRascalMCES.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_link_script CMakeFiles/RascalMCES.dir/link.txt 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/usr/lib/aarch64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRascalMCES.so.1.2025.03.6 ../../../lib/libRDKitRascalMCES.so.1 ../../../lib/libRDKitRascalMCES.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 72%] Built target RascalMCES make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake "--color=" molNormalizeTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 72%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -MF CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o.d -o CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -c 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../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDetermineBonds.so.1.2025.03.6 ../../../lib/libRDKitDetermineBonds.so.1 ../../../lib/libRDKitDetermineBonds.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 72%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o -MF CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o.d -o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/ChiralityOps.cpp [ 72%] Built target DetermineBonds make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake "--color=" molValidateTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o -MF CMakeFiles/molValidateTest.dir/testValidate.cpp.o.d -o CMakeFiles/molValidateTest.dir/testValidate.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/testValidate.cpp [ 73%] Linking CXX shared library ../../../lib/libRDKitMolDraw2D.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolDraw2D.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/MolDraw2D.dir/link.d 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CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o ../../../lib/libRDKitChemReactions.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libfreetype.so ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libcairo.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolDraw2D.so.1.2025.03.6 ../../../lib/libRDKitMolDraw2D.so.1 ../../../lib/libRDKitMolDraw2D.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Built target MolDraw2D make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake "--color=" molChargeTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/testCharge.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/testCharge.cpp.o -MF CMakeFiles/molChargeTest.dir/testCharge.cpp.o.d -o CMakeFiles/molChargeTest.dir/testCharge.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/testCharge.cpp [ 73%] Linking CXX executable molInterchangeTest1 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/molInterchangeTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/molInterchangeTest1.dir/link.d CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -o molInterchangeTest1 ../../../lib/libRDKitMolInterchange.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Built target molInterchangeTest1 make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 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-DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -MF CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o.d -o CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/testTautomer.cpp [ 73%] Linking CXX executable molInterchangeCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/molInterchangeCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/molInterchangeCatchTest.dir/link.d CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o -o molInterchangeCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolInterchange.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Built target molInterchangeCatchTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake "--color=" molStandardizeSmallTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make 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/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -MF CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o.d -o CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/test2.cpp [ 73%] Linking CXX executable molNormalizeTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molNormalizeTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection 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/usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Built target molNormalizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake "--color=" molFragmentTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/testFragment.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -MF CMakeFiles/molFragmentTest.dir/testFragment.cpp.o.d -o CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/testFragment.cpp [ 73%] Linking CXX executable molStandardizeTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/molStandardizeTest.dir/link.d CMakeFiles/molStandardizeTest.dir/test1.cpp.o -o molStandardizeTest ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake "--color=" molStandardizeCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK 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/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.dir/DependInfo.cmake "--color=" molStandardizePipelineTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.dir/testPipeline.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.dir/testPipeline.cpp.o -MF CMakeFiles/molStandardizePipelineTest.dir/testPipeline.cpp.o.d -o CMakeFiles/molStandardizePipelineTest.dir/testPipeline.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/testPipeline.cpp [ 73%] Linking CXX executable molChargeTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molChargeTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/molChargeTest.dir/link.d CMakeFiles/molChargeTest.dir/testCharge.cpp.o -o molChargeTest 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../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 73%] Built target molChargeTest make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu 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-DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o -MF CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.cpp [ 74%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Validate.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Validate.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/Validate.cpp [ 74%] Linking CXX executable molStandardizeSmallTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeSmallTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/molStandardizeSmallTest.dir/link.d CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -o molStandardizeSmallTest ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 74%] Built target molStandardizeSmallTest make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 75%] Built target molFragmentTest [ 75%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Charge.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/Charge.cpp make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake "--color=" testMolEnumerator make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make 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-g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -MF CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o.d -o CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/enumerator_catch.cpp [ 75%] Linking CXX shared library ../../../lib/libRDKitScaffoldNetwork.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_link_script CMakeFiles/ScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/ScaffoldNetwork.dir/link.d -Wl,-soname,libRDKitScaffoldNetwork.so.1 -o ../../../lib/libRDKitScaffoldNetwork.so.1.2025.03.6 CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so 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../../../lib/libRDKitScaffoldNetwork.so.1 ../../../lib/libRDKitScaffoldNetwork.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 75%] Built target ScaffoldNetwork make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake "--color=" rdMolEnumerator make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolEnumerator_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o -MF CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o.d -o CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/Wrap/rdMolEnumerator.cpp [ 75%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp [ 75%] Linking CXX executable molTautomerTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molTautomerTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/molTautomerTest.dir/link.d CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -o molTautomerTest ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 75%] Built target 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -MF CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o.d -o CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/catch_tests.cpp [ 75%] Linking CXX executable molStandardizePipelineTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizePipelineTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard 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-Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/MolProcessing.cpp.o -MF CMakeFiles/MolProcessing.dir/MolProcessing.cpp.o.d -o CMakeFiles/MolProcessing.dir/MolProcessing.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolProcessing/MolProcessing.cpp [ 76%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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-I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o -MF CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o.d -o CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/MarvinParser.cpp [ 77%] Linking CXX executable molStandardizeCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 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molStandardizeCatchTest [ 77%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings 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-D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Pipeline.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Pipeline.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Pipeline.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/Pipeline.cpp [ 77%] Linking CXX shared module ../../../../rdkit/Chem/rdMolEnumerator.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolEnumerator.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function 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/usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 77%] Built target rdMolEnumerator make -f 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Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMarvinParser_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MARVINPARSER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o -MF CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o.d -o CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/MarvinDefs.cpp [ 78%] Linking CXX shared library ../../../lib/libRDKitTautomerQuery.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/TautomerQuery.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -MF CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o.d -o CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/testAUTOCORR2D.cpp [ 78%] Linking CXX executable testMIF cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMIF.dir/link.txt --verbose=1 make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 78%] Built target testMIF make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 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-DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/testBCUT.cpp.o -MF CMakeFiles/testBCUT.dir/testBCUT.cpp.o.d -o CMakeFiles/testBCUT.dir/testBCUT.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/testBCUT.cpp make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/DependInfo.cmake "--color=" testEEM make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 78%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/testEEM.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/testEEM.cpp.o -MF CMakeFiles/testEEM.dir/testEEM.cpp.o.d -o CMakeFiles/testEEM.dir/testEEM.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/testEEM.cpp In file included from /usr/include/c++/15/string:56, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/bits/unique_ptr.h:42, from /usr/include/c++/15/memory:80, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /usr/include/boost/python/suite/indexing/indexing_suite.hpp:9, from /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:9, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp:11: In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::append(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1536:42, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator+=(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1478:28, inlined from ‘static void boost::python::map_indexing_suite::extension_def(Class&) [with Class = boost::python::class_, RDKit::MolStandardize::Tautomer>, boost::noncopyable_::noncopyable>; Container = std::map, RDKit::MolStandardize::Tautomer>; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_map_derived_policies, RDKit::MolStandardize::Tautomer>, true>]’ at /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:77:23: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&class_name_extractor + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp: In static member function ‘static void boost::python::map_indexing_suite::extension_def(Class&) [with Class = boost::python::class_, RDKit::MolStandardize::Tautomer>, boost::noncopyable_::noncopyable>; Container = std::map, RDKit::MolStandardize::Tautomer>; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_map_derived_policies, RDKit::MolStandardize::Tautomer>, true>]’: /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:76:34: note: ‘class_name_extractor’ declared here 76 | extract class_name_extractor(class_name); | ^~~~~~~~~~~~~~~~~~~~ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::append(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1536:28, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator+=(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1478:28, inlined from ‘static void boost::python::map_indexing_suite::extension_def(Class&) [with Class = boost::python::class_, RDKit::MolStandardize::Tautomer>, boost::noncopyable_::noncopyable>; Container = std::map, RDKit::MolStandardize::Tautomer>; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_map_derived_policies, RDKit::MolStandardize::Tautomer>, true>]’ at /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:77:23: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&class_name_extractor + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp: In static member function ‘static void boost::python::map_indexing_suite::extension_def(Class&) [with Class = boost::python::class_, RDKit::MolStandardize::Tautomer>, boost::noncopyable_::noncopyable>; Container = std::map, RDKit::MolStandardize::Tautomer>; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_map_derived_policies, RDKit::MolStandardize::Tautomer>, true>]’: /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:76:34: note: ‘class_name_extractor’ declared here 76 | extract class_name_extractor(class_name); | ^~~~~~~~~~~~~~~~~~~~ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘static boost::python::map_indexing_suite::index_type boost::python::map_indexing_suite::convert_index(Container&, PyObject*) [with Container = std::map, RDKit::MolStandardize::Tautomer>; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_map_derived_policies, RDKit::MolStandardize::Tautomer>, true>]’ at /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:170:30: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&i + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp: In function ‘static boost::python::map_indexing_suite::index_type boost::python::map_indexing_suite::convert_index(Container&, PyObject*) [with Container = std::map, RDKit::MolStandardize::Tautomer>; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_map_derived_policies, RDKit::MolStandardize::Tautomer>, true>]’: /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:168:35: note: ‘i’ declared here 168 | extract i(i_); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘static boost::python::map_indexing_suite::index_type boost::python::map_indexing_suite::convert_index(Container&, PyObject*) [with Container = std::map, RDKit::MolStandardize::Tautomer>; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_map_derived_policies, RDKit::MolStandardize::Tautomer>, true>]’ at /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:170:30: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&i + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp: In function ‘static boost::python::map_indexing_suite::index_type boost::python::map_indexing_suite::convert_index(Container&, PyObject*) [with Container = std::map, RDKit::MolStandardize::Tautomer>; bool NoProxy = true; DerivedPolicies = boost::python::detail::final_map_derived_policies, RDKit::MolStandardize::Tautomer>, true>]’: /usr/include/boost/python/suite/indexing/map_indexing_suite.hpp:168:35: note: ‘i’ declared here 168 | extract i(i_); | ^ [ 78%] Linking CXX executable testBCUT cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testBCUT.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testBCUT.dir/link.d CMakeFiles/testBCUT.dir/testBCUT.cpp.o -o testBCUT ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' In file included from /usr/include/boost/python/override.hpp:13, from /usr/include/boost/python/wrapper.hpp:8, from /usr/include/boost/python/object/value_holder.hpp:15, from /usr/include/boost/python/object/class_metadata.hpp:14, from /usr/include/boost/python/class.hpp:23: In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = long int]’, inlined from ‘boost::python::extract::operator result_type() const [with T = long int]’ at /usr/include/boost/python/extract.hpp:136:23, inlined from ‘static void boost::python::detail::slice_helper::base_get_slice_data(Container&, PySliceObject*, Index&, Index&) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, long unsigned int, boost::python::detail::final_vector_derived_policies, false> >, long unsigned int>; Data = RDKit::MolStandardize::TautomerScoringFunctions::SubstructTerm; Index = long unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:617:27: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ In file included from /usr/include/boost/python/suite/indexing/indexing_suite.hpp:12: /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp: In static member function ‘static void boost::python::detail::slice_helper::base_get_slice_data(Container&, PySliceObject*, Index&, Index&) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, long unsigned int, boost::python::detail::final_vector_derived_policies, false> >, long unsigned int>; Data = RDKit::MolStandardize::TautomerScoringFunctions::SubstructTerm; Index = long unsigned int]’: /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:617:27: note: ‘’ declared here 617 | long to = extract( slice->stop); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘boost::python::converter::extract_rvalue::result_type boost::python::converter::extract_rvalue::operator()() const [with T = long int]’, inlined from ‘boost::python::extract::operator result_type() const [with T = long int]’ at /usr/include/boost/python/extract.hpp:136:23, inlined from ‘static void boost::python::detail::slice_helper::base_get_slice_data(Container&, PySliceObject*, Index&, Index&) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, long unsigned int, boost::python::detail::final_vector_derived_policies, false> >, long unsigned int>; Data = RDKit::MolStandardize::TautomerScoringFunctions::SubstructTerm; Index = long unsigned int]’ at /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:603:29: /usr/include/boost/python/extract.hpp:185:11: warning: ‘*(long int*)((char*)& + offsetof(boost::python::extract,boost::python::extract::.boost::python::converter::extract_rvalue::m_data.boost::python::converter::rvalue_from_python_data::.boost::python::converter::rvalue_from_python_storage::storage))’ may be used uninitialized [-Wmaybe-uninitialized] 185 | ); | ^ /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp: In static member function ‘static void boost::python::detail::slice_helper::base_get_slice_data(Container&, PySliceObject*, Index&, Index&) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, long unsigned int, boost::python::detail::final_vector_derived_policies, false> >, long unsigned int>; Data = RDKit::MolStandardize::TautomerScoringFunctions::SubstructTerm; Index = long unsigned int]’: /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:603:29: note: ‘’ declared here 603 | long from = extract( slice->start); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 78%] Built target testBCUT make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make 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cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/MarvinParser.dir/link.txt --verbose=1 [ 80%] Linking CXX executable testWHIM cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testWHIM.dir/link.txt --verbose=1 [ 80%] Linking CXX executable testGETAWAY cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGETAWAY.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now 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../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMarvinParser.so.1.2025.03.6 ../../../lib/libRDKitMarvinParser.so.1 ../../../lib/libRDKitMarvinParser.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Built target MarvinParser make -f 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-D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testWHIM.dir/link.d CMakeFiles/testWHIM.dir/testWHIM.cpp.o -o testWHIM ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Built target testWHIM [ 80%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -MF CMakeFiles/moldraw2DTest1.dir/test1.cpp.o.d -o CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/test1.cpp make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D 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-DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/catch_tests.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testGETAWAY.dir/link.d CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o -o testGETAWAY ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Built target testGETAWAY make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake "--color=" moldraw2DRxnTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -MF CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o.d -o CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/rxn_test1.cpp [ 80%] Linking CXX executable testCoulombMat cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoulombMat.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testCoulombMat.dir/link.d CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -o testCoulombMat ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitDistGeomHelpers.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitDistGeometry.so.1.2025.03.6 ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Built target testCoulombMat make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake "--color=" rdMolDraw2D make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDraw2D_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -MF CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o.d -o CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function ‘std::pair {anonymous}::{anonymous}::BCUT2D_list(const RDKit::ROMol&, boost::python::list)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:444:61: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 444 | python::list atomprops) { | ^ [ 81%] Linking CXX executable testAUTOCORR3D cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR3D.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testAUTOCORR3D.dir/link.d CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -o testAUTOCORR3D ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Built target testAUTOCORR3D make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake "--color=" testFMCS make[4]: Leaving directory 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/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -MF CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o.d -o CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/testFMCS_Unit.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/bits/specfun.h:43, from /usr/include/c++/15/cmath:3913, from /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/types.h:21, from /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/utils.h:15, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/test1.cpp:12: /usr/include/c++/15/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/test1.cpp:1593:46: required from here 1593 | drawer.getAtomCoords(std::make_pair(ocoords.x, ocoords.y)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 81%] Linking CXX executable moldraw2DRxnTest1 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DRxnTest1.dir/link.txt --verbose=1 [ 81%] Linking CXX executable descriptorsTestCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/descriptorsTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/moldraw2DRxnTest1.dir/link.d CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -o moldraw2DRxnTest1 ../../../lib/libRDKitMolDraw2D.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libcairo.so /usr/lib/aarch64-linux-gnu/libfreetype.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap 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-DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFMCS_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -MF CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o.d -o CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/descriptorsTestCatch.dir/link.d CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o -o descriptorsTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Built target descriptorsTestCatch make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake "--color=" FMCStest make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o -MF CMakeFiles/FMCStest.dir/testFMCS.cpp.o.d -o CMakeFiles/FMCStest.dir/testFMCS.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Test/testFMCS.cpp [ 81%] Linking CXX shared library ../../../lib/libRDKitO3AAlign.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/O3AAlign.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/O3AAlign.dir/link.d -Wl,-soname,libRDKitO3AAlign.so.1 -o ../../../lib/libRDKitO3AAlign.so.1.2025.03.6 CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake "--color=" testMMPA make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -MF CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o.d -o CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/MMPA_UnitTest.cpp [ 81%] Linking CXX executable FMCStest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCStest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/FMCStest.dir/link.d CMakeFiles/FMCStest.dir/testFMCS.cpp.o -o FMCStest ../../../../lib/libRDKitFMCS.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Built target FMCStest make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake "--color=" rdMMPA make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMMPA_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -MF CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o.d -o CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp [ 81%] Linking CXX executable testMMPA cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMPA.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testMMPA.dir/link.d CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -o testMMPA ../../../lib/libRDKitMMPA.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Built target testMMPA make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/DependInfo.cmake "--color=" testRascalMCES make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o -MF CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o.d -o CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/mces_catch.cpp [ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFMCS.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdFMCS.dir/link.d -o ../../../../rdkit/Chem/rdFMCS.so CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o ../../../../lib/libRDKitFMCS.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Built target rdFMCS make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/DependInfo.cmake "--color=" testRascalCluster make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o -MF CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o.d -o CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/mces_cluster_catch.cpp [ 81%] Linking CXX executable testFMCS cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFMCS.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard 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-DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o -MF CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o.d -o CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GeneralizedSubstruct/XQMol.cpp [ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdMolDescriptors.so cd 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/deprotectTest.cpp [ 81%] Building CXX object Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGeneralizedSubstruct_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GENERALIZEDSUBSTRUCT_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g 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-fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o -MF CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o.d -o CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/Wrap/rdDeprotect.cpp [ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdRascalMCES.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdRascalMCES.dir/link.txt --verbose=1 [ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdEnumerateStereoisomers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdEnumerateStereoisomers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong 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Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong 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../../../lib/libRDKitGeneralizedSubstruct.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/GeneralizedSubstruct.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/GeneralizedSubstruct.dir/link.d -Wl,-soname,libRDKitGeneralizedSubstruct.so.1 -o ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 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../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitGeneralizedSubstruct.so.1 ../../../lib/libRDKitGeneralizedSubstruct.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 82%] Built target GeneralizedSubstruct [ 83%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ 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Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -MF CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/CIPLabeler.cpp [ 83%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Mancude.cpp make -f Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/build.make Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd 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Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/rdDetermineBonds.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDetermineBonds_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/rdDetermineBonds.cpp.o -MF CMakeFiles/rdDetermineBonds.dir/rdDetermineBonds.cpp.o.d -o CMakeFiles/rdDetermineBonds.dir/rdDetermineBonds.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DetermineBonds/Wrap/rdDetermineBonds.cpp [ 83%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB 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-DRGroupDecomposition_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupUtils.cpp [ 83%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o cd 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-Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Digraph.cpp [ 83%] Linking CXX shared module ../../../../rdkit/Chem/rdDetermineBonds.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDetermineBonds.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 83%] Built target rdDeprotect make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake "--color=" rdmolfiles make[4]: Leaving directory 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-I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o -MF CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o.d -o CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdmolfiles.cpp [ 83%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Edge.cpp.o cd 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-Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Sort.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Sort.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Sort.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Sort.cpp [ 83%] Linking CXX executable determineBondsCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds && /usr/bin/cmake -E cmake_link_script CMakeFiles/determineBondsCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard 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-fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp [ 83%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o -MF CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Configuration.cpp [ 83%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupCore.cpp [ 83%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o -MF CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake "--color=" testScaffoldNetwork make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build.make 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-DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -MF CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o.d -o CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/catch_tests.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/moldraw2DTestCatch.dir/link.d CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -o moldraw2DTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolDraw2D.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libcairo.so /usr/lib/aarch64-linux-gnu/libfreetype.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 83%] Built target moldraw2DTestCatch [ 83%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o -MF CMakeFiles/rdchem.dir/Atom.cpp.o.d -o CMakeFiles/rdchem.dir/Atom.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/Atom.cpp In file included from /usr/include/c++/15/string:56, from /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Invariant.h:17, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RDKitBase.h:21, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdchem.cpp:13: In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘PyObject* createExceptionClass(const char*, PyObject*)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdchem.cpp:80:68: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdchem.cpp: In function ‘PyObject* createExceptionClass(const char*, PyObject*)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdchem.cpp:80:68: note: ‘’ declared here 80 | python::extract(python::scope().attr("__name__")); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘PyObject* createExceptionClass(const char*, PyObject*)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdchem.cpp:80:68: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdchem.cpp: In function ‘PyObject* createExceptionClass(const char*, PyObject*)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdchem.cpp:80:68: note: ‘’ declared here 80 | python::extract(python::scope().attr("__name__")); | ^ [ 83%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o -MF CMakeFiles/rdchem.dir/Bond.cpp.o.d -o CMakeFiles/rdchem.dir/Bond.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/Bond.cpp [ 83%] Building CXX object 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-mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o -MF CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp [ 83%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT 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-I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupScore.cpp [ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ 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-I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/SDMolSupplier.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. 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-DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/TDTMolSupplier.cpp [ 89%] Linking CXX 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../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 90%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o [ 90%] Built target 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Code/GraphMol/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.dir/rdMolProcessing.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolProcessing_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem 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CXX object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/adapter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_MOLINTERCHANGE_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_TOOLKIT_VERSION=\"2025.03.6\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/include/freetype2 -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/adapter.cpp.o -MF CMakeFiles/rdkit.dir/adapter.cpp.o.d -o CMakeFiles/rdkit.dir/adapter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/adapter.cpp [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB 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-Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o -MF CMakeFiles/rdchem.dir/EditableMol.cpp.o.d -o CMakeFiles/rdchem.dir/EditableMol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/EditableMol.cpp [ 91%] Linking CXX executable testMolProcessing cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolProcessing.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testMolProcessing.dir/link.d 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/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/SmilesMolSupplier.cpp [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_op.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT 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warning: unused parameter ‘isQuery’ [-Wunused-parameter] 1637 | extern "C" CBfp makeAvalonBFP(CROMol data, bool isQuery, | ~~~~~^~~~~~~ /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/adapter.cpp:1638:44: warning: unused parameter ‘bitFlags’ [-Wunused-parameter] 1638 | unsigned int bitFlags) { | ~~~~~~~~~~~~~^~~~~~~~ [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/cache.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_MOLINTERCHANGE_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_TOOLKIT_VERSION=\"2025.03.6\" 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-std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/guc.c.o -MF CMakeFiles/rdkit.dir/guc.c.o.d -o CMakeFiles/rdkit.dir/guc.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/guc.c [ 92%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -MF CMakeFiles/rdchem.dir/MonomerInfo.cpp.o.d -o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/MonomerInfo.cpp [ 92%] Linking CXX shared module ../../../../rdkit/Chem/rdMolProcessing.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/Wrap && 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../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 92%] Built target rdMolProcessing [ 92%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION 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Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -MF CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o.d -o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp [ 92%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB 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Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/SDWriter.cpp [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/low_gist.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_MOLINTERCHANGE_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_TOOLKIT_VERSION=\"2025.03.6\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/include/freetype2 -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/low_gist.c.o -MF CMakeFiles/rdkit.dir/low_gist.c.o.d -o CMakeFiles/rdkit.dir/low_gist.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/low_gist.c [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/mol_op.c.o cd 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/usr/include/cairo -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/mol_op.c.o -MF CMakeFiles/rdkit.dir/mol_op.c.o.d -o CMakeFiles/rdkit.dir/mol_op.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/mol_op.c [ 92%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK 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Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/TDTWriter.cpp [ 92%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/PDBWriter.cpp [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rdkit_gist.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc 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-ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rdkit_gist.c.o -MF CMakeFiles/rdkit.dir/rdkit_gist.c.o.d -o CMakeFiles/rdkit.dir/rdkit_gist.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/rdkit_gist.c [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_gist.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT 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-Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/include/freetype2 -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_gin.c.o -MF CMakeFiles/rdkit.dir/bfp_gin.c.o.d -o CMakeFiles/rdkit.dir/bfp_gin.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/bfp_gin.c [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bitstring.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_MOLINTERCHANGE_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_TOOLKIT_VERSION=\"2025.03.6\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/include/freetype2 -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bitstring.c.o -MF CMakeFiles/rdkit.dir/bitstring.c.o.d -o CMakeFiles/rdkit.dir/bitstring.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/bitstring.c [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rdkit_io.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_MOLINTERCHANGE_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_TOOLKIT_VERSION=\"2025.03.6\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/include/freetype2 -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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-I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o -MF CMakeFiles/rdchem.dir/MolBundle.cpp.o.d -o CMakeFiles/rdchem.dir/MolBundle.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/MolBundle.cpp [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rxn_op.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_MOLINTERCHANGE_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_TOOLKIT_VERSION=\"2025.03.6\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/include/freetype2 -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rxn_op.c.o -MF CMakeFiles/rdkit.dir/rxn_op.c.o.d -o CMakeFiles/rdkit.dir/rxn_op.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/rxn_op.c [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/sfp_op.c.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007600\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_MOLINTERCHANGE_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_TOOLKIT_VERSION=\"2025.03.6\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/include/freetype2 -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function 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The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/rdkit.dir/link.d -Wl,-soname,librdkit.so -o librdkit.so CMakeFiles/rdkit.dir/adapter.cpp.o CMakeFiles/rdkit.dir/bfp_op.c.o CMakeFiles/rdkit.dir/cache.c.o CMakeFiles/rdkit.dir/guc.c.o CMakeFiles/rdkit.dir/low_gist.c.o CMakeFiles/rdkit.dir/mol_op.c.o CMakeFiles/rdkit.dir/rdkit_gist.c.o CMakeFiles/rdkit.dir/bfp_gist.c.o CMakeFiles/rdkit.dir/bfp_gin.c.o CMakeFiles/rdkit.dir/bitstring.c.o CMakeFiles/rdkit.dir/rdkit_io.c.o CMakeFiles/rdkit.dir/rxn_op.c.o CMakeFiles/rdkit.dir/sfp_op.c.o -L/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/lib /usr/lib/aarch64-linux-gnu/libpq.so ../../../lib/libRDKitRDInchiLib.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libinchi.so ../../../lib/libRDKitMolInterchange.so.1.2025.03.6 ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolDraw2D.so.1.2025.03.6 ../../../lib/libRDKitMolHash.so.1.2025.03.6 ../../../lib/libRDKitFMCS.so.1.2025.03.6 ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcairo.so /usr/lib/aarch64-linux-gnu/libfreetype.so ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 -ldl /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/sql /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit/sql cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/data /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit/data cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/expected /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit/expected make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 93%] Built target rdkit [ 93%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o -MF CMakeFiles/rdchem.dir/StereoGroup.cpp.o.d -o CMakeFiles/rdchem.dir/StereoGroup.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/StereoGroup.cpp [ 93%] Linking CXX executable testMrvToMol cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMrvToMol.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time 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-MD -MT Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -MF CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o.d -o CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign 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-I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearch_details.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearch_details.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearch_details.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearch_details.cpp [ 94%] Linking CXX executable tautomerQueryTestCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/tautomerQueryTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/tautomerQueryTestCatch.dir/link.d CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -o tautomerQueryTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 94%] Built target tautomerQueryTestCatch make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake "--color=" SubstructLibrary make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make 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-I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -MF CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o.d -o CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/SubstructLibrary.cpp In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/string:53, from /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Invariant.h:17, from /build/reproducible-path/rdkit-202503.6/Code/Numerics/Matrix.h:14, from /build/reproducible-path/rdkit-202503.6/Code/Numerics/SquareMatrix.h:14, from /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform3D.h:16, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/AlignMolecules.h:14, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/testO3AAlign.cpp:11: /usr/include/c++/15/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/testO3AAlign.cpp:643:37: required from here 643 | oscores.push_back(std::make_pair(rmsd, score)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 94%] Linking CXX shared module ../../../../rdkit/Chem/rdTautomerQuery.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdTautomerQuery.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdTautomerQuery.dir/link.d -o ../../../../rdkit/Chem/rdTautomerQuery.so CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o ../../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 94%] Built target rdTautomerQuery [ 94%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o -MF CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o.d -o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/PatternFactory.cpp [ 95%] Linking CXX shared module ../../../rdkit/Chem/rdchem.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdchem.dir/link.txt --verbose=1 make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake "--color=" testRGroupDecomp make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 95%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -MF CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o.d -o CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdchem.dir/link.d -o ../../../rdkit/Chem/rdchem.so CMakeFiles/rdchem.dir/rdchem.cpp.o 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 95%] Built target rdchem make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/DependInfo.cmake "--color=" testRGroupDecompInternals make[4]: Leaving directory 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-I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpace.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpace.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpace.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.cpp [ 96%] Linking CXX shared module ../../../../rdkit/Chem/rdMolAlign.so cd 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../../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../../lib/libRDKitDepictor.so.1.2025.03.6 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 96%] Built target rdMolAlign [ 96%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSet.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SYNTHONSPACESEARCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSynthonSpaceSearch_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSet.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSet.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSet.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSet.cpp make 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/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o -MF CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o.d -o CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/catch_rgd.cpp In file included from /usr/include/c++/15/string:56, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/rdkit-202503.6/Code/Geometry/point.h:14, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolPickler.h:14, from /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:34: In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘boost::python::api::object RDKit::addReactionToPNGFileHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:508:56: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::addReactionToPNGFileHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:508:56: note: ‘’ declared here 508 | std::string cstr = python::extract(fname); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘boost::python::api::object RDKit::addReactionToPNGFileHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:508:56: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::addReactionToPNGFileHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:508:56: note: ‘’ declared here 508 | std::string cstr = python::extract(fname); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘boost::python::api::object RDKit::addReactionToPNGStringHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:495:54: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::addReactionToPNGStringHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:495:54: note: ‘’ declared here 495 | std::string cstr = python::extract(png); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘boost::python::api::object RDKit::addReactionToPNGStringHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:495:54: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::addReactionToPNGStringHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:495:54: note: ‘’ declared here 495 | std::string cstr = python::extract(png); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘std::string RDKit::pyObjectToString(boost::python::api::object)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:74:15: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&ex + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘std::string RDKit::pyObjectToString(boost::python::api::object)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:72:32: note: ‘ex’ declared here 72 | python::extract ex(input); | ^~ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘std::string RDKit::pyObjectToString(boost::python::api::object)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:74:15: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&ex + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘std::string RDKit::pyObjectToString(boost::python::api::object)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:72:32: note: ‘ex’ declared here 72 | python::extract ex(input); | ^~ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = wchar_t; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = wchar_t; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘std::string RDKit::pyObjectToString(boost::python::api::object)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:76:56: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘std::string RDKit::pyObjectToString(boost::python::api::object)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:76:56: note: ‘’ declared here 76 | std::wstring ws = python::extract(input); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = wchar_t; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = wchar_t; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = wchar_t; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘std::string RDKit::pyObjectToString(boost::python::api::object)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:76:56: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘std::string RDKit::pyObjectToString(boost::python::api::object)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:76:56: note: ‘’ declared here 76 | std::wstring ws = python::extract(input); | ^ [ 97%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/Synthon.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SYNTHONSPACESEARCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSynthonSpaceSearch_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/Synthon.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/Synthon.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/Synthon.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/Synthon.cpp [ 97%] Linking CXX executable testRGroupDecompInternals cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRGroupDecompInternals.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testRGroupDecompInternals.dir/link.d CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o -o testRGroupDecompInternals ../../../lib/libRDKitRGroupDecomposition.so.1.2025.03.6 ../../../lib/libRDKitFMCS.so.1.2025.03.6 ../../../lib/libRDKitga.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 97%] Built target testRGroupDecompInternals make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/DependInfo.cmake "--color=" gaExample make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 97%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/GaExample.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/GaExample.cpp.o -MF CMakeFiles/gaExample.dir/GaExample.cpp.o.d -o CMakeFiles/gaExample.dir/GaExample.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/GaExample.cpp In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘boost::python::api::object RDKit::PreprocessReaction(ChemicalReaction&, boost::python::dict, std::string)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:443:71: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::PreprocessReaction(ChemicalReaction&, boost::python::dict, std::string)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:443:71: note: ‘’ declared here 443 | std::string k = python::extract(queryDict.keys()[i]); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘boost::python::api::object RDKit::PreprocessReaction(ChemicalReaction&, boost::python::dict, std::string)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:443:71: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::PreprocessReaction(ChemicalReaction&, boost::python::dict, std::string)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:443:71: note: ‘’ declared here 443 | std::string k = python::extract(queryDict.keys()[i]); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::pointer std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_data() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:34, inlined from ‘boost::python::api::object RDKit::AddRecursiveQueriesToReaction(ChemicalReaction&, boost::python::dict, std::string, bool)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:402:69: /usr/include/c++/15/bits/basic_string.h:239:28: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_dataplus.std::__cxx11::basic_string::_Alloc_hider::_M_p’ may be used uninitialized [-Wmaybe-uninitialized] 239 | { return _M_dataplus._M_p; } | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::AddRecursiveQueriesToReaction(ChemicalReaction&, boost::python::dict, std::string, bool)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:402:69: note: ‘’ declared here 402 | std::string k = python::extract(queryDict.keys()[i]); | ^ In member function ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:1176:20, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/15/bits/basic_string.h:617:20, inlined from ‘boost::python::api::object RDKit::AddRecursiveQueriesToReaction(ChemicalReaction&, boost::python::dict, std::string, bool)’ at /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:402:69: /usr/include/c++/15/bits/basic_string.h:1165:19: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)& + offsetof(boost::python::extract, std::allocator > >,boost::python::extract, std::allocator > >::.boost::python::converter::extract_rvalue, std::allocator > >::m_data.boost::python::converter::rvalue_from_python_data, std::allocator > >::.boost::python::converter::rvalue_from_python_storage, std::allocator > >::storage)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1165 | size_type __sz = _M_string_length; | ^~~~ /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::AddRecursiveQueriesToReaction(ChemicalReaction&, boost::python::dict, std::string, bool)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:402:69: note: ‘’ declared here 402 | std::string k = python::extract(queryDict.keys()[i]); | ^ [ 97%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructLibrary.dir/link.txt --verbose=1 [ 97%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearcher.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SYNTHONSPACESEARCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/SubstructLibrary.dir/link.d -Wl,-soname,libRDKitSubstructLibrary.so.1 -o ../../../lib/libRDKitSubstructLibrary.so.1.2025.03.6 CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 /usr/lib/aarch64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructLibrary.so.1.2025.03.6 ../../../lib/libRDKitSubstructLibrary.so.1 ../../../lib/libRDKitSubstructLibrary.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 97%] Built target SubstructLibrary make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && 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Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdRGroupDecomposition_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include 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shared module ../../../../rdkit/Chem/rdChemReactions.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemReactions.dir/link.txt --verbose=1 [ 97%] Linking CXX executable rgroupCatchTests cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/rgroupCatchTests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/gaExample.dir/link.d CMakeFiles/gaExample.dir/GaExample.cpp.o -o gaExample 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Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceHitSet.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SYNTHONSPACESEARCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSynthonSpaceSearch_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong 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Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/catch_tests.cpp [ 98%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SearchResults.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SYNTHONSPACESEARCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSynthonSpaceSearch_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SearchResults.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SearchResults.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SearchResults.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SearchResults.cpp [ 98%] Linking CXX shared module ../../../../rdkit/Chem/rdRGroupDecomposition.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdRGroupDecomposition.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdRGroupDecomposition.dir/link.d -o ../../../../rdkit/Chem/rdRGroupDecomposition.so CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o ../../../../lib/libRDKitRGroupDecomposition.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitFMCS.so.1.2025.03.6 ../../../../lib/libRDKitga.so.1.2025.03.6 ../../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../../lib/libRDKitCatalogs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 98%] Built target rdRGroupDecomposition [ 98%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/MemoryMappedFileReader.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SYNTHONSPACESEARCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSynthonSpaceSearch_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/MemoryMappedFileReader.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/MemoryMappedFileReader.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/MemoryMappedFileReader.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/MemoryMappedFileReader.cpp make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake "--color=" rdSubstructLibrary make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -MF CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o.d -o CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp [ 98%] Linking CXX executable substructLibraryTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/substructLibraryTest.dir/link.d CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -o substructLibraryTest ../../../lib/libRDKitSubstructLibrary.so.1.2025.03.6 ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 98%] Built target substructLibraryTest [ 99%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o -MF CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o.d -o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp [ 99%] Linking CXX executable testRGroupDecomp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRGroupDecomp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testRGroupDecomp.dir/link.d CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -o testRGroupDecomp ../../../lib/libRDKitRGroupDecomposition.so.1.2025.03.6 ../../../lib/libRDKitFMCS.so.1.2025.03.6 ../../../lib/libRDKitga.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 99%] Built target testRGroupDecomp [ 99%] Linking CXX shared library ../../../lib/libRDKitSynthonSpaceSearch.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_link_script CMakeFiles/SynthonSpaceSearch.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/SynthonSpaceSearch.dir/link.d -Wl,-soname,libRDKitSynthonSpaceSearch.so.1 -o ../../../lib/libRDKitSynthonSpaceSearch.so.1.2025.03.6 CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearch_details.cpp.o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpace.cpp.o CMakeFiles/SynthonSpaceSearch.dir/SynthonSet.cpp.o CMakeFiles/SynthonSpaceSearch.dir/Synthon.cpp.o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearcher.cpp.o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSubstructureSearcher.cpp.o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceFingerprintSearcher.cpp.o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceRascalSearcher.cpp.o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceHitSet.cpp.o CMakeFiles/SynthonSpaceSearch.dir/SearchResults.cpp.o CMakeFiles/SynthonSpaceSearch.dir/MemoryMappedFileReader.cpp.o ../../../lib/libRDKitRascalMCES.so.1.2025.03.6 ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSynthonSpaceSearch.so.1.2025.03.6 ../../../lib/libRDKitSynthonSpaceSearch.so.1 ../../../lib/libRDKitSynthonSpaceSearch.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 99%] Built target SynthonSpaceSearch make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/depend make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/DependInfo.cmake "--color=" testSynthonSpaceSubstructureSearch make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/DependInfo.cmake "--color=" testSynthonSpaceFingerprintSearch make -f Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/DependInfo.cmake "--color=" testSynthonSpaceRascalSearch make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/DependInfo.cmake "--color=" rdSynthonSpaceSearch make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.cpp.o make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/build cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.cpp.o -MF CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.cpp.o.d -o CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/substructure_search_catch_tests.cpp [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/rascal_search_catch_tests.cpp.o make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o -MF CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o.d -o CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/fingerprint_search_catch_tests.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/rascal_search_catch_tests.cpp.o -MF CMakeFiles/testSynthonSpaceRascalSearch.dir/rascal_search_catch_tests.cpp.o.d -o CMakeFiles/testSynthonSpaceRascalSearch.dir/rascal_search_catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/rascal_search_catch_tests.cpp [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/rdSynthonSpaceSearch.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSynthonSpaceSearch_EXPORTS -I/build/reproducible-path/rdkit-202503.6/External -I/build/reproducible-path/rdkit-202503.6/Code -I/build/reproducible-path/rdkit-202503.6/External/boost-numeric-bindings -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/python3.13 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/rdSynthonSpaceSearch.cpp.o -MF CMakeFiles/rdSynthonSpaceSearch.dir/rdSynthonSpaceSearch.cpp.o.d -o CMakeFiles/rdSynthonSpaceSearch.dir/rdSynthonSpaceSearch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/Wrap/rdSynthonSpaceSearch.cpp [ 99%] Linking CXX executable substructLibraryCatchTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/substructLibraryCatchTest.dir/link.d CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o -o substructLibraryCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSubstructLibrary.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 99%] Built target substructLibraryCatchTest [100%] Linking CXX executable testSynthonSpaceRascalSearch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSynthonSpaceRascalSearch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testSynthonSpaceRascalSearch.dir/link.d CMakeFiles/testSynthonSpaceRascalSearch.dir/rascal_search_catch_tests.cpp.o -o testSynthonSpaceRascalSearch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSubstructLibrary.so.1.2025.03.6 ../../../lib/libRDKitSynthonSpaceSearch.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitRascalMCES.so.1.2025.03.6 ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [100%] Built target testSynthonSpaceRascalSearch [100%] Linking CXX executable testSynthonSpaceFingerprintSearch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSynthonSpaceFingerprintSearch.dir/link.txt --verbose=1 [100%] Linking CXX executable testSynthonSpaceSubstructureSearch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSynthonSpaceSubstructureSearch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testSynthonSpaceFingerprintSearch.dir/link.d CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o -o testSynthonSpaceFingerprintSearch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSubstructLibrary.so.1.2025.03.6 ../../../lib/libRDKitSynthonSpaceSearch.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitRascalMCES.so.1.2025.03.6 ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [100%] Built target testSynthonSpaceFingerprintSearch /usr/bin/ld: CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.cpp.o: in function `CATCH2_INTERNAL_TEST_20()': ./obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/./Code/GraphMol/SynthonSpaceSearch/substructure_search_catch_tests.cpp:334:(.text+0x1460): warning: the use of `tmpnam' is dangerous, better use `mkstemp' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/testSynthonSpaceSubstructureSearch.dir/link.d CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.cpp.o -o testSynthonSpaceSubstructureSearch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSubstructLibrary.so.1.2025.03.6 ../../../lib/libRDKitSynthonSpaceSearch.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitRascalMCES.so.1.2025.03.6 ../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [100%] Built target testSynthonSpaceSubstructureSearch [100%] Linking CXX shared module ../../../../rdkit/Chem/rdSynthonSpaceSearch.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSynthonSpaceSearch.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSynthonSpaceSearch.dir/link.d -o ../../../../rdkit/Chem/rdSynthonSpaceSearch.so CMakeFiles/rdSynthonSpaceSearch.dir/rdSynthonSpaceSearch.cpp.o ../../../../lib/libRDKitSynthonSpaceSearch.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitRascalMCES.so.1.2025.03.6 ../../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [100%] Built target rdSynthonSpaceSearch [100%] Linking CXX shared module ../../../../rdkit/Chem/rdSubstructLibrary.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSubstructLibrary.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSubstructLibrary.dir/link.d -o ../../../../rdkit/Chem/rdSubstructLibrary.so CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o ../../../../lib/libRDKitSubstructLibrary.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../../lib/libRDKitTautomerQuery.so.1.2025.03.6 ../../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../../lib/libRDKitDepictor.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../../lib/libRDKitSubgraphs.so.1.2025.03.6 ../../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 ../../../../lib/libRDKitRDGeneral.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [100%] Built target rdSubstructLibrary make[3]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' for v in $(pg_buildext supported-versions); do \ (cd Code/PgSQL/rdkit/build-$v && make || $(cat ../../../../obj-*/Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/link.txt | sed -e 's#\.\./\.\./#../../../../obj-*/Code/#g')); \ done make[2]: Entering directory '/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18' /usr/bin/cmake -S/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit -B/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18/CMakeFiles /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18' make -f CMakeFiles/rdkit.dir/build.make CMakeFiles/rdkit.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18' cd /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18 /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18 /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18/CMakeFiles/rdkit.dir/DependInfo.cmake "--color=" rdkit make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18' make -f CMakeFiles/rdkit.dir/build.make CMakeFiles/rdkit.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18' [ 7%] Building CXX object CMakeFiles/rdkit.dir/adapter.cpp.o /usr/bin/c++ -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++20 -fPIC -MD -MT CMakeFiles/rdkit.dir/adapter.cpp.o -MF CMakeFiles/rdkit.dir/adapter.cpp.o.d -o CMakeFiles/rdkit.dir/adapter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/adapter.cpp [ 14%] Building C object CMakeFiles/rdkit.dir/bfp_op.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/bfp_op.c.o -MF CMakeFiles/rdkit.dir/bfp_op.c.o.d -o CMakeFiles/rdkit.dir/bfp_op.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/bfp_op.c [ 21%] Building C object CMakeFiles/rdkit.dir/cache.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/cache.c.o -MF CMakeFiles/rdkit.dir/cache.c.o.d -o CMakeFiles/rdkit.dir/cache.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/cache.c [ 28%] Building C object CMakeFiles/rdkit.dir/guc.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/guc.c.o -MF CMakeFiles/rdkit.dir/guc.c.o.d -o CMakeFiles/rdkit.dir/guc.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/guc.c [ 35%] Building C object CMakeFiles/rdkit.dir/low_gist.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/low_gist.c.o -MF CMakeFiles/rdkit.dir/low_gist.c.o.d -o CMakeFiles/rdkit.dir/low_gist.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/low_gist.c [ 42%] Building C object CMakeFiles/rdkit.dir/mol_op.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/mol_op.c.o -MF CMakeFiles/rdkit.dir/mol_op.c.o.d -o CMakeFiles/rdkit.dir/mol_op.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/mol_op.c [ 50%] Building C object CMakeFiles/rdkit.dir/rdkit_gist.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/rdkit_gist.c.o -MF CMakeFiles/rdkit.dir/rdkit_gist.c.o.d -o CMakeFiles/rdkit.dir/rdkit_gist.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/rdkit_gist.c [ 57%] Building C object CMakeFiles/rdkit.dir/bfp_gist.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/bfp_gist.c.o -MF CMakeFiles/rdkit.dir/bfp_gist.c.o.d -o CMakeFiles/rdkit.dir/bfp_gist.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/bfp_gist.c [ 64%] Building C object CMakeFiles/rdkit.dir/bfp_gin.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/bfp_gin.c.o -MF CMakeFiles/rdkit.dir/bfp_gin.c.o.d -o CMakeFiles/rdkit.dir/bfp_gin.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/bfp_gin.c [ 71%] Building C object CMakeFiles/rdkit.dir/bitstring.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/bitstring.c.o -MF CMakeFiles/rdkit.dir/bitstring.c.o.d -o CMakeFiles/rdkit.dir/bitstring.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/bitstring.c [ 78%] Building C object CMakeFiles/rdkit.dir/rdkit_io.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/rdkit_io.c.o -MF CMakeFiles/rdkit.dir/rdkit_io.c.o.d -o CMakeFiles/rdkit.dir/rdkit_io.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/rdkit_io.c [ 85%] Building C object CMakeFiles/rdkit.dir/rxn_op.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/rxn_op.c.o -MF CMakeFiles/rdkit.dir/rxn_op.c.o.d -o CMakeFiles/rdkit.dir/rxn_op.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/rxn_op.c [ 92%] Building C object CMakeFiles/rdkit.dir/sfp_op.c.o /usr/bin/cc -DRDKITVER=\"007600\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu99 -fPIC -MD -MT CMakeFiles/rdkit.dir/sfp_op.c.o -MF CMakeFiles/rdkit.dir/sfp_op.c.o.d -o CMakeFiles/rdkit.dir/sfp_op.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/sfp_op.c [100%] Linking CXX shared library librdkit.so /usr/bin/cmake -E cmake_link_script CMakeFiles/rdkit.dir/link.txt --verbose=1 /usr/bin/ld: cannot find -lGeneralizedSubstruct: No such file or directory /usr/bin/ld: cannot find -lMolEnumerator: No such file or directory /usr/bin/ld: cannot find -lTautomerQuery: No such file or directory /usr/bin/ld: cannot find -lMolDraw2D: No such file or directory /usr/bin/ld: cannot find -lMolTransforms: No such file or directory /usr/bin/ld: cannot find -lMolHash: No such file or directory /usr/bin/ld: cannot find -lFMCS: No such file or directory /usr/bin/ld: cannot find -lChemReactions: No such file or directory /usr/bin/ld: cannot find 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exit status /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-z,relro -Wl,-z,now -mbranch-protection=standard -Wl,--dependency-file=CMakeFiles/rdkit.dir/link.d -Wl,-soname,librdkit.so -o librdkit.so CMakeFiles/rdkit.dir/adapter.cpp.o CMakeFiles/rdkit.dir/bfp_op.c.o CMakeFiles/rdkit.dir/cache.c.o CMakeFiles/rdkit.dir/guc.c.o CMakeFiles/rdkit.dir/low_gist.c.o CMakeFiles/rdkit.dir/mol_op.c.o CMakeFiles/rdkit.dir/rdkit_gist.c.o CMakeFiles/rdkit.dir/bfp_gist.c.o CMakeFiles/rdkit.dir/bfp_gin.c.o CMakeFiles/rdkit.dir/bitstring.c.o CMakeFiles/rdkit.dir/rdkit_io.c.o CMakeFiles/rdkit.dir/rxn_op.c.o CMakeFiles/rdkit.dir/sfp_op.c.o /usr/lib/aarch64-linux-gnu/libpq.so -lGeneralizedSubstruct -lMolEnumerator -lTautomerQuery -lMolDraw2D -lMolTransforms -lMolHash -lFMCS -lChemReactions -lChemTransforms -lFileParsers -lSmilesParse -lFingerprints -lSubgraphs -lDescriptors -lPartialCharges -lSubstructMatch -lGraphMol -lEigenSolvers -lDataStructs -lDepictor -lRDGeometryLib -lRDGeneral -lrdkit_base make[4]: *** [CMakeFiles/rdkit.dir/build.make:297: librdkit.so] Error 1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18' make[3]: *** [CMakeFiles/Makefile2:90: CMakeFiles/rdkit.dir/all] Error 2 make[3]: Leaving directory '/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18' make[2]: *** [Makefile:139: all] Error 2 make[2]: Leaving directory '/build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/build-18' /usr/lib/aarch64-linux-gnu/libinchi.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. (cd /build/reproducible-path/rdkit-202503.6/Code; doxygen doxygen/doxygen.config) warning: Tag 'TCL_SUBST' at line 213 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'SYMBOL_CACHE_SIZE' at line 337 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'SHOW_DIRECTORIES' at line 557 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'COLS_IN_ALPHA_INDEX' at line 869 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'HTML_TIMESTAMP' at line 965 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'HTML_ALIGN_MEMBERS' at line 971 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'USE_INLINE_TREES' at line 1162 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'FORMULA_TRANSPARENT' at line 1189 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'LATEX_SOURCE_CODE' at line 1327 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'XML_SCHEMA' at line 1425 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'XML_DTD' at line 1431 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'PERL_PATH' at line 1596 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'CLASS_DIAGRAMS' at line 1608 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MSCGEN_PATH' at line 1617 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTNAME' at line 1647 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTSIZE' at line 1652 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_TRANSPARENT' at line 1792 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: argument 'a4wide' for option PAPER_TYPE is not a valid enum value Using the default: a4! warning: doxygen no longer ships with the FreeSans font. You may want to clear or change DOT_FONTNAME. Otherwise you run the risk that the wrong font is being used for dot generated graphs. Doxygen version used: 1.15.0 Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for plantuml files... Searching for files to exclude Searching INPUT for files to process... 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in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/data Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/libs Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/TautomerQuery Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Qt 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/build/reproducible-path/rdkit-202503.6/Code/ML Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/ML/Cluster Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/ML/Cluster/Murtagh Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/ML/Data Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/DataManip Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/RDGeneral Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/hash Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/hash/detail Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/RDBoost Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/DistGeom Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/ForceField Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/Numerics Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/Numerics/Alignment Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/Numerics/Optimizer Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/Numerics/EigenSolvers Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/Geometry Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/Features Searching for files in directory /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures Reading and parsing tag files Parsing files Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/Abbreviations.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/Abbreviations.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Atom.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Atom.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/atomic_data.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/atomic_data.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/AtomIterators.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/AtomIterators.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Atropisomers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Atropisomers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Bond.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Bond.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/BondIterators.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/BondIterators.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Canon.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Canon.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/CartesianProduct.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/CartesianProduct.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerateBase.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerateBase.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/E/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionParser.h:171: warning: unbalanced grouping commands venSamplePairs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/RandomSample.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/RandomSample.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/PreprocessRxn.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/PreprocessRxn.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Reaction.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Reaction.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionFingerprints.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionFingerprints.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionParser.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionParser.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionPickler.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionPickler.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionRunner.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionRunner.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/SanitizeRxn.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/SanitizeRxn.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/ChemTransforms.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/ChemTransforms.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/MolFragmenter.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/MolFragmenter.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/MolFragmenterJSONParser.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/MolFragmenterJSONParser.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Chirality.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Chirality.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/CIPLabeler.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/CIPLabeler.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/CIPMol.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/CIPMol.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Configuration.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Configuration.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Sp2Bond.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Sp2Bond.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Tetrahedral.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Tetrahedral.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Descriptor.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Descriptor.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Digraph.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Digraph.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Edge.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Edge.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Mancude.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Mancude.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Node.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Node.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Priority.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Priority.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Pairlist.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Pairlist.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule1a.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule1a.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule1b.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule1b.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule2.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule2.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule3.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule3.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4a.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4a.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4b.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4b.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4c.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4c.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule5.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule5.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule5New.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule5New.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule6.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule6.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rules.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rules.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/SequenceRule.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/SequenceRule.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Sort.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Sort.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/TooManyNodesException.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/TooManyNodesException.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Conformer.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Conformer.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/DepictUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/DepictUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/EmbeddedFrag.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/EmbeddedFrag.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/RDDepictor.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/RDDepictor.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/Templates.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/Templates.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/TemplateSmiles.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/TemplateSmiles.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/Deprotect.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/Deprotect.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/AtomFeat.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/AtomFeat.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/AUTOCORR2D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/AUTOCORR2D.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/AUTOCORR3D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/AUTOCORR3D.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/BCUT.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/BCUT.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/ConnectivityDescriptors.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/ConnectivityDescriptors.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/CoulombMat.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/CoulombMat.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Crippen.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Crippen.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Data3Ddescriptors.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Data3Ddescriptors.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/DCLV.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/DCLV.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/EEM.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/EEM.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/GETAWAY.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/GETAWAY.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Lipinski.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Lipinski.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolData3Ddescriptors.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolData3Ddescriptors.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolDescriptors.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolDescriptors.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolDescriptors3D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolDescriptors3D.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolSurf.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MolSurf.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MORSE.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MORSE.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MQN.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/MQN.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/OxidationNumbers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/OxidationNumbers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/PBF.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/PBF.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/PMI.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/PMI.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Property.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Property.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/RDF.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/RDF.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/RegisterDescriptor.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/RegisterDescriptor.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/USRDescriptor.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/USRDescriptor.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/WHIM.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/WHIM.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/details.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/details.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DetermineBonds/DetermineBonds.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DetermineBonds/DetermineBonds.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/Embedder.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/Embedder.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/EnumerateStereoisomers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/EnumerateStereoisomers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/Flippers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/Flippers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/CDXMLParser.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/CDXMLParser.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileParsers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileParsers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileParserUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileParserUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/GeneralFileReader.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/GeneralFileReader.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MaestroProperties.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MaestroProperties.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolFileStereochem.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolFileStereochem.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSGroupParsing.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSGroupParsing.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSGroupWriting.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSGroupWriting.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.v1API.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.v1API.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolWriters.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolWriters.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedMolSupplier.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedMolSupplier.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/PNGParser.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/PNGParser.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/ProximityBonds.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/ProximityBonds.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SequenceParsers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SequenceParsers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SequenceWriters.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SequenceWriters.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterCatalog.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterCatalog.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatchers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatchers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/Filters.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/Filters.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/AtomPairGenerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/AtomPairGenerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/AtomPairs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/AtomPairs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintGenerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintGenerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Fingerprints.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Fingerprints.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintUtil.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintUtil.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MACCS.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MACCS.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MHFP.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MHFP.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganFingerprints.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganFingerprints.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/RDKitFPGenerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/RDKitFPGenerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Composition2N.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Composition2N.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/DebugTrace.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/DebugTrace.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/DuplicatedSeedCache.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/DuplicatedSeedCache.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/FMCS.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/FMCS.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Graph.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Graph.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/MatchTable.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/MatchTable.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/MaximumCommonSubgraph.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/MaximumCommonSubgraph.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Seed.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Seed.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/SeedSet.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/SeedSet.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/SubstructMatchCustom.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/SubstructMatchCustom.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/SubstructureCache.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/SubstructureCache.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Target.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Target.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/TargetMatch.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/TargetMatch.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleContribs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleContribs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/FFConvenience.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/FFConvenience.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/MMFF.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/MMFF/MMFF.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/Builder.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/Builder.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/UFF.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/UFF.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatGenerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatGenerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragFPGenerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragFPGenerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GeneralizedSubstruct/XQMol.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GeneralizedSubstruct/XQMol.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GenericGroups/GenericGroups.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GenericGroups/GenericGroups.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GraphMol.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GraphMol.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/MarvinDefs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/MarvinDefs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/MarvinParser.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/MarvinParser.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/MMPA.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/MMPA.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/AlignMolecules.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/AlignMolecules.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/O3AAlignMolecules.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/O3AAlignMolecules.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolBundle.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolBundle.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/MolCatalog.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/MolCatalog.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/MolCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/MolCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/MolCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/MolCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/FeatureParser.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/FeatureParser.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/AtomSymbol.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/AtomSymbol.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawAnnotation.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawAnnotation.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMol.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMol.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCH.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCH.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawShape.h... Parsing file /build/r/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:233: warning: unbalanced grouping commands eproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawShape.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawText.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawText.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextCairo.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextCairo.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFT.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFT.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTCairo.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTCairo.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTJS.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTJS.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTSVG.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextFTSVG.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextJS.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextJS.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextNotFT.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextNotFT.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextSVG.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawTextSVG.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Fonts/roboto_regular.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Fonts/roboto_regular.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Fonts/telex_regular.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Fonts/telex_regular.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DCairo.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DCairo.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DJS.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DJS.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2Dwx.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2Dwx.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Qt/DrawTextFTQt.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Qt/DrawTextFTQt.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Qt/DrawTextQt.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphM/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:522: warning: unbalanced grouping commands /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:782: warning: unbalanced grouping commands ol/MolDraw2D/Qt/DrawTextQt.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Qt/MolDraw2DQt.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Qt/MolDraw2DQt.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/StringRect.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/StringRect.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/LinkNode.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/LinkNode.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/mf.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/mf.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/MolHash.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/MolHash.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/nmmolhash.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/nmmolhash.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/MIFDescriptors.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/MIFDescriptors.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/details.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/details.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/MolInterchange.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/MolInterchange.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolPickler.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolPickler.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolProcessing/MolProcessing.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolProcessing/MolProcessing.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Charge.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Charge.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Fragment.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Fragment.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Metal.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Metal.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/MolStandardize.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/MolStandardize.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Normalize.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Normalize.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Pipeline.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Pipeline.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Tautomer.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Tautomer.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Validate.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Validate.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolTransforms/MolTransforms.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolTransforms/MolTransforms.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MonomerInfo.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MonomerInfo.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/new_canon.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/new_canon.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/GasteigerCharges.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/GasteigerCharges.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/GasteigerParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/GasteigerParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PeriodicTable.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PeriodicTable.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryAtom.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryAtom.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryBond.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryBond.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/PartitionSet.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/PartitionSet.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalClusterOptions.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalClusterOptions.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalDetails.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalDetails.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalMCES.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalMCES.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalOptions.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalOptions.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalResult.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/RascalResult.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RDKitBase.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RDKitBase.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RDKitQueries.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RDKitQueries.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs/ReducedGraphs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs/ReducedGraphs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Resonance.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Resonance.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupCore.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupCore.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupData.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupData.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecompData.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecompData.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecompJSONParsers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecompJSONParsers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupFingerprintScore.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupFingerprintScore.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupGa.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupGa.h... Preprocessing /build/reproducible-/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ROMol.h:416: warning: unbalanced grouping commands path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupMatch.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupMatch.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupScore.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupScore.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RingInfo.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RingInfo.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Rings.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Rings.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ROMol.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ROMol.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RWMol.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RWMol.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SanitException.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SanitException.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/detail.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/detail.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/ShapeEncoder.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/ShapeEncoder.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/ShapeUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/ShapeUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/SLNAttribs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/SLNAttribs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/SLNParse.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/SLNParse.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/SLNParseOps.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/SLNParseOps.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/CanonicalizeStereoGroups.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/CanonicalizeStereoGroups.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmartsWrite.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmartsWrite.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesJSONParsers.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesJSONParsers.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesParse.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesParse.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesParseOps.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesParseOps.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesWrite.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesWrite.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StereoGroup.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StereoGroup.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/Pattern.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/Pattern.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/ReCharge.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/ReCharge.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/Stereo.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/Stereo.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/StripSmallFragments.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/StripSmallFragments.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/StructChecker.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/StructChecker.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/StructCheckerOptions.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/StructCheckerOptions.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/Tautomer.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/Tautomer.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/Utilites.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/StructChecker/Utilites.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/Subgraphs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/Subgraphs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/SubgraphUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/SubgraphUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstanceGroup.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstanceGroup.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructMatch.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructMatch.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/PatternFactory.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/PatternFactory.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/SubstructLibrary.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/SubstructLibrary.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/MemoryMappedFileReader.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/MemoryMappedFileReader.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SearchResults.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SearchResults.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/Synthon.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/Synthon.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSet.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSet.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceFingerprintSearcher.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceFingerprintSearcher.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceHitSet.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceHitSet.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceRascalSearcher.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceRascalSearcher.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearch_details.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearch_details.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSubstructureSearcher.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSubstructureSearcher.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/TautomerQuery/TautomerQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/TautomerQuery/TautomerQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Trajectory/Snapshot.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Trajectory/Snapshot.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Trajectory/Trajectory.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Trajectory/Trajectory.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Catalogs/Catalog.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Catalogs/Catalog.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Catalogs/CatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Catalogs/CatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Catalogs/CatalogParams.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Catalogs/CatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/base64.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/base64.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitOps.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitOps.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitVect.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitVect.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitVects.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitVects.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitVectUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitVectUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DatastructsException.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DatastructsException.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DatastructsStreamOps.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DatastructsStreamOps.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DiscreteDistMat.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DiscreteDistMat.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DiscreteValueVect.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DiscreteValueVect.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/ExplicitBitVect.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/ExplicitBitVect.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/FPBReader.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/FPBReader.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/MultiFPBReader.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/MultiFPBReader.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/RealValueVect.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/RealValueVect.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/SparseBitVect.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/SparseBitVect.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataStructs/SparseIntVect.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataStructs/SparseIntVect.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/AndQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/AndQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/EqualityQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/EqualityQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/GreaterEqualQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/GreaterEqualQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/GreaterQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/GreaterQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/LessEqualQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/LessEqualQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/LessQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/LessQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/NullQueryAlgebra.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/NullQueryAlgebra.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/OrQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/OrQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/Query.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/Query.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/QueryObjects.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/QueryObjects.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/RangeQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/RangeQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/SetQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/SetQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Query/XOrQuery.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Query/XOrQuery.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/CorrMatGenerator.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/CorrMatGenerator.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/InfoBitRanker.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/InfoBitRanker.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/InfoGainFuncs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/InfoGainFuncs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/MetricFuncs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/MetricFuncs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/MetricMatrixCalc.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/MetricMatrixCalc.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/DistPicker.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/DistPicker.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/HierarchicalClusterPicker.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/HierarchicalClusterPicker.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/LeaderPicker.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/LeaderPicker.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/MaxMinPicker.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/MaxMinPicker.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/BadFileException.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/BadFileException.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/BetterEnums.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/BetterEnums.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/BoostEndInclude.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/BoostEndInclude.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/BoostStartInclude.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/BoostStartInclude.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/ConcurrentQueue.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/ConcurrentQueue.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/ControlCHandler.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/ControlCHandler.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Dict.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Dict.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/enum.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/enum.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Exceptions.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Exceptions.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/export.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/export.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/FileParseException.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/FileParseException.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/hanoiSort.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/hanoiSort.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Invariant.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Invariant.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/LocaleSwitcher.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/LocaleSwitcher.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Ranking.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/Ranking.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDAny.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDAny.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDConfig.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDConfig.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDExportMacros.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDExportMacros.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDLog.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDLog.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDProps.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDProps.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDThreads.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDThreads.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDValue-doublemagic.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDValue-doublemagic.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDValue-taggedunion.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDValue-taggedunion.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDValue.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDValue.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/StreamOps.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/StreamOps.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/types.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/types.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/utils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/utils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/versions.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/versions.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDBoost/boost_numpy.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDBoost/boost_numpy.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDBoost/import_array.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDBoost/import_array.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDBoost/pyint_api.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDBoost/pyint_api.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDBoost/PySequenceHolder.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDBoost/PySequenceHolder.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDBoost/python.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDBoost/python.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/RDBoost/python_streambuf.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/RDBoost/python_streambuf.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DistGeom/BoundsMatrix.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DistGeom/BoundsMatrix.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DistGeom/ChiralSet.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DistGeom/ChiralSet.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DistGeom/ChiralViolationContribs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DistGeom/ChiralViolationContribs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DistGeom/DistGeomUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DistGeom/DistGeomUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DistGeom/DistViolationContribs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DistGeom/DistViolationContribs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DistGeom/FourthDimContribs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DistGeom/FourthDimContribs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/DistGeom/TriangleSmooth.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/DistGeom/TriangleSmooth.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/Contrib.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/Contrib.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraints.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraints.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/ForceField.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/ForceField.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/AngleBend.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/AngleBend.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/AngleConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/AngleConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/BondStretch.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/BondStretch.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Contribs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Contribs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/DistanceConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/DistanceConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Nonbonded.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Nonbonded.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/OopBend.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/OopBend.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Params.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Params.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/PositionConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/PositionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/StretchBend.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/StretchBend.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/TorsionAngle.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/TorsionAngle.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/TorsionConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/TorsionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/PositionConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/PositionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/TorsionConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/TorsionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/AngleBend.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/AngleBend.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/AngleConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/AngleConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/BondStretch.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/BondStretch.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Contribs.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Contribs.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/DistanceConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/DistanceConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Inversion.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Inversion.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Inversions.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Inversions.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Nonbonded.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Nonbonded.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Params.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Params.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/PositionConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/PositionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/TorsionAngle.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/TorsionAngle.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/TorsionConstraint.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/TorsionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Utils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Utils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Numerics/Alignment/AlignPoints.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Numerics/Alignment/AlignPoints.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Numerics/Conrec.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Numerics/Conrec.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Numerics/EigenSolvers/PowerEigenSolver.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Numerics/EigenSolvers/PowerEigenSolver.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Numerics/Matrix.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Numerics/Matrix.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Numerics/Optimizer/BFGSOpt.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Numerics/Optimizer/BFGSOpt.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Numerics/SquareMatrix.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Numerics/SquareMatrix.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Numerics/SymmMatrix.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Numerics/SymmMatrix.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Numerics/Vector.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Numerics/Vector.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Geometry/Grid3D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/Grid3D.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Geometry/GridUtils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/GridUtils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Geometry/point.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/point.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform2D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform2D.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform3D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform3D.h... Preprocessin/build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h:62: warning: documented symbol 'for experimental torsion angle RDKit::DGeomHelpers::preferences' was not declared or defined. /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:1226: warning: documented symbol 'modifies molecule in RDKit::MolOps::place' was not declared or defined. /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:1242: warning: documented symbol 'modifies molecule in RDKit::MolOps::place' was not declared or defined. /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Pipeline.h:90: warning: documented symbol 'enum RDKIT_MOLSTANDARDIZE_EXPORT RDKit::MolStandardize::PipelineStatus' was not declared or defined. /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h:535: warning: Found unknown command '\overloadquery' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:80: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:135: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:209: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:84: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:139: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:213: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:77: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:132: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:206: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h:526: warning: Found unknown command '\overloadquery' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:87: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:142: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:216: warning: Found unknown command '\override' g /build/reproducible-path/rdkit-202503.6/Code/Geometry/UniformGrid3D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/UniformGrid3D.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Geometry/UniformRealValueGrid3D.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/UniformRealValueGrid3D.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Geometry/Utils.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Geometry/Utils.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/Features/Feature.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/Features/Feature.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/ChemicalFeature.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/ChemicalFeature.h... Preprocessing /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/FreeChemicalFeature.h... Parsing file /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/FreeChemicalFeature.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Building concept list... Computing nesting relations for classes... Associating documentation with classes... Associating documentation with concepts... Associating documentation with modules... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Warn for undocumented namespaces... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Computing module relations... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Computing tooltip texts... Generating style sheet... Generating search indices... Generating example documentation... Generating file sources... Generating code for file Catalog.h... Generating code for file CatalogEntry.h... Generating code for file CatalogParams.h... Generating code for file ChemicalFeature.h... Generating code for file FreeChemicalFeature.h... Generating code for file MetricFuncs.h... Generating code for file MetricMatrixCalc.h... Generating code for file base64.h... Generating code for file BitOps.h... Generating code for file BitVect.h... Generating code for file BitVects.h... Generating code for file BitVectUtils.h... Generating code for file DatastructsException.h... Generating code for file DatastructsStreamOps.h... Generating code for file DiscreteDistMat.h... Generating code for file DiscreteValueVect.h... Generating code for file ExplicitBitVect.h... Generating code for file FPBReader.h... Generating code for file MultiFPBReader.h... Generating code for file RealValueVect.h... Generating code for file SparseBitVect.h... Generating code for file SparseIntVect.h... Generating code for file BoundsMatrix.h... Generating code for file ChiralSet.h... Generating code for file ChiralViolationContribs.h... Generating code for file DistGeomUtils.h... Generating code for file DistViolationContribs.h... Generating code for file FourthDimContribs.h... Generating code for file TriangleSmooth.h... Generating code for file Feature.h... Generating code for file AngleConstraints.h... Generating code for file Contrib.h... Generating code for file DistanceConstraints.h... Generating code for file ForceField.h... Generating code for file OopBend.h... Generating code for file StretchBend.h... Generating code for file AngleBend.h... Generating code for file AngleBend.h... Generating code for file AngleConstraint.h... Generating code for file AngleConstraint.h... Generating code for file AngleConstraint.h... Generating code for file BondStretch.h... Generating code for file BondStretch.h... Generating code for file Contribs.h... Generating code for file Contribs.h... Generating code for file DistanceConstraint.h... Generating code for file DistanceConstraint.h... Generating code for file DistanceConstraint.h... Generating code for file Inversion.h... Generating code for file Inversions.h... Generating code for file Nonbonded.h... Generating code for file Nonbonded.h... Generating code for file Params.h... Generating code for file Params.h... Generating code for file PositionConstraint.h... Generating code for file PositionConstraint.h... Generating code for file PositionConstraint.h... Generating code for file TorsionAngle.h... Generating code for file TorsionAngle.h... Generating code for file TorsionConstraint.h... Generating code for file TorsionConstraint.h... Generating code for file TorsionConstraint.h... Generating code for file Utils.h... Generating code for file Utils.h... Generating code for file Grid3D.h... Generating code for file GridUtils.h... Generating code for file point.h... Generating code for file Transform.h... Generating code for file Transform2D.h... Generating code for file Transform3D.h... Generating code for file UniformGrid3D.h... Generating code for file UniformRealValueGrid3D.h... Generating code for file Abbreviations.h... Generating code for file Atom.h... Generating code for file atomic_data.h... Generating code for file AtomIterators.h... Generating code for file Atropisomers.h... Generating code for file Bond.h... Generating code for file BondIterators.h... Generating code for file Canon.h... Generating code for file CartesianProduct.h... Generating code for file Enumerate.h... Generating code for file EnumerateBase.h... Generating code for file EnumerateTypes.h... Generating code for file EnumerationPickler.h... Generating code for file EnumerationStrategyBase.h... Generating code for file EvenSamplePairs.h... Generating code for file RandomSample.h... Generating code for file RandomSampleAllBBs.h... Generating code for file PreprocessRxn.h... Generating code for file Reaction.h... Generating code for file ReactionFingerprints.h... Generating code for file ReactionParser.h... Generating code for file ReactionPickler.h... Generating code for file ReactionRunner.h... Generating code for file ReactionUtils.h... Generating code for file SanitizeRxn.h... Generating code for file ChemTransforms.h... Generating code for file MolFragmenter.h... Generating code for file MolFragmenterJSONParser.h... Generating code for file Chirality.h... Generating code for file CIPLabeler.h... Generating code for file CIPMol.h... Generating code for file AtropisomerBond.h... Generating code for file Configuration.h... Generating code for file Sp2Bond.h... Generating code for file Tetrahedral.h... Generating code for file Descriptor.h... Generating code for file Digraph.h... Generating code for file Edge.h... Generating code for file Mancude.h... Generating code for file Node.h... Generating code for file Priority.h... Generating code for file Pairlist.h... Generating code for file Rule1a.h... Generating code for file Rule1b.h... Generating code for file Rule2.h... Generating code for file Rule3.h... Generating code for file Rule4a.h... Generating code for file Rule4b.h... Generating code for file Rule4c.h... Generating code for file Rule5.h... Generating code for file Rule5New.h... Generating code for file Rule6.h... Generating code for file Rules.h... Generating code for file SequenceRule.h... Generating code for file Sort.h... Generating code for file TooManyNodesException.h... Generating code for file Conformer.h... Generating code for file DepictUtils.h... Generating code for file EmbeddedFrag.h... Generating code for file RDDepictor.h... Generating code for file Templates.h... Generating code for file TemplateSmiles.h... Generating code for file Deprotect.h... Generating code for file AtomFeat.h... Generating code for file AUTOCORR2D.h... Generating code for file AUTOCORR3D.h... Generating code for file BCUT.h... Generating code for file ConnectivityDescriptors.h... Generating code for file CoulombMat.h... Generating code for file Crippen.h... Generating code for file Data3Ddescriptors.h... Generating code for file DCLV.h... Generating code for file EEM.h... Generating code for file GETAWAY.h... Generating code for file Lipinski.h... Generating code for file MolData3Ddescriptors.h... Generating code for file MolDescriptors.h... Generating code for file MolDescriptors3D.h... Generating code for file MolSurf.h... Generating code for file MORSE.h... Generating code for file MQN.h... Generating code for file OxidationNumbers.h... Generating code for file PBF.h... Generating code for file PMI.h... Generating code for file Property.h... Generating code for file RDF.h... Generating code for file RegisterDescriptor.h... Generating code for file USRDescriptor.h... Generating code for file WHIM.h... Generating code for file details.h... Generating code for file details.h... Generating code for file DetermineBonds.h... Generating code for file BoundsMatrixBuilder.h... Generating code for file Embedder.h... Generating code for file EnumerateStereoisomers.h... Generating code for file Flippers.h... Generating code for file CDXMLParser.h... Generating code for file FileParsers.h... Generating code for file FileParserUtils.h... Generating code for file FileWriters.h... Generating code for file GeneralFileReader.h... Generating code for file MaestroProperties.h... Generating code for file MolFileStereochem.h... Generating code for file MolSGroupParsing.h... Generating code for file MolSGroupWriting.h... Generating code for file MolSupplier.h... Generating code for file MolSupplier.v1API.h... Generating code for file MolWriters.h... Generating code for file MultithreadedMolSupplier.h... Generating code for file MultithreadedSDMolSupplier.h... Generating code for file MultithreadedSmilesMolSupplier.h... Generating code for file PNGParser.h... Generating code for file ProximityBonds.h... Generating code for file SequenceParsers.h... Generating code for file SequenceWriters.h... Generating code for file FilterCatalog.h... Generating code for file FilterCatalogEntry.h... Generating code for file FilterMatcherBase.h... Generating code for file FilterMatchers.h... Generating code for file Filters.h... Generating code for file FunctionalGroupHierarchy.h... Generating code for file AtomPairGenerator.h... Generating code for file AtomPairs.h... Generating code for file FingerprintGenerator.h... Generating code for file Fingerprints.h... Generating code for file FingerprintUtil.h... Generating code for file MACCS.h... Generating code for file MHFP.h... Generating code for file MorganFingerprints.h... Generating code for file MorganGenerator.h... Generating code for file RDKitFPGenerator.h... Generating code for file TopologicalTorsionGenerator.h... Generating code for file Composition2N.h... Generating code for file DebugTrace.h... Generating code for file DuplicatedSeedCache.h... Generating code for file FMCS.h... Generating code for file Graph.h... Generating code for file MatchTable.h... Generating code for file MaximumCommonSubgraph.h... Generating code for file Seed.h... Generating code for file SeedSet.h... Generating code for file SubstructMatchCustom.h... Generating code for file SubstructureCache.h... Generating code for file Target.h... Generating code for file TargetMatch.h... Generating code for file TorsionAngleContribs.h... Generating code for file TorsionAngleM6.h... Generating code for file TorsionPreferences.h... Generating code for file FFConvenience.h... Generating code for file MMFF.h... Generating code for file AtomTyper.h... Generating code for file AtomTyper.h... Generating code for file Builder.h... Generating code for file Builder.h... Generating code for file UFF.h... Generating code for file FragCatalogEntry.h... Generating code for file FragCatalogUtils.h... Generating code for file FragCatGenerator.h... Generating code for file FragCatParams.h... Generating code for file FragFPGenerator.h... Generating code for file XQMol.h... Generating code for file GenericGroups.h... Generating code for file GraphMol.h... Generating code for file MarvinDefs.h... Generating code for file MarvinParser.h... Generating code for file MMPA.h... Generating code for file AlignMolecules.h... Generating code for file O3AAlignMolecules.h... Generating code for file MolBundle.h... Generating code for file MolCatalog.h... Generating code for file MolCatalogEntry.h... Generating code for file MolCatalogParams.h... Generating code for file FeatureParser.h... Generating code for file MolChemicalFeature.h... Generating code for file MolChemicalFeatureDef.h... Generating code for file MolChemicalFeatureFactory.h... Generating code for file AtomSymbol.h... Generating code for file DrawAnnotation.h... Generating code for file DrawMol.h... Generating code for file DrawMolMCH.h... Generating code for file DrawMolMCHCircleAndLine.h... Generating code for file DrawMolMCHLasso.h... Generating code for file DrawShape.h... Generating code for file DrawText.h... Generating code for file DrawTextCairo.h... Generating code for file DrawTextFT.h... Generating code for file DrawTextFTCairo.h... Generating code for file DrawTextFTJS.h... Generating code for file DrawTextFTSVG.h... Generating code for file DrawTextJS.h... Generating code for file DrawTextNotFT.h... Generating code for file DrawTextSVG.h... Generating code for file roboto_regular.h... Generating code for file telex_regular.h... Generating code for file MolDraw2D.h... Generating code for file MolDraw2DCairo.h... Generating code for file MolDraw2DDetails.h... Generating code for file MolDraw2DHelpers.h... Generating code for file MolDraw2DJS.h... Generating code for file MolDraw2DSVG.h... Generating code for file MolDraw2DUtils.h... Generating code for file MolDraw2Dwx.h... Generating code for file DrawTextFTQt.h... Generating code for file DrawTextQt.h... Generating code for file MolDraw2DQt.h... Generating code for file StringRect.h... Generating code for file LinkNode.h... Generating code for file MolEnumerator.h... Generating code for file mf.h... Generating code for file MolHash.h... Generating code for file nmmolhash.h... Generating code for file MIFDescriptors.h... Generating code for file MolInterchange.h... Generating code for file MolOps.h... Generating code for file MolPickler.h... Generating code for file MolProcessing.h... Generating code for file AcidBaseCatalogEntry.h... Generating code for file AcidBaseCatalogParams.h... Generating code for file AcidBaseCatalogUtils.h... Generating code for file Charge.h... Generating code for file Fragment.h... Generating code for file FragmentCatalogEntry.h... Generating code for file FragmentCatalogParams.h... Generating code for file FragmentCatalogUtils.h... Generating code for file Metal.h... Generating code for file MolStandardize.h... Generating code for file Normalize.h... Generating code for file Pipeline.h... Generating code for file TautomerCatalogEntry.h... Generating code for file TautomerCatalogParams.h... Generating code for file TautomerCatalogUtils.h... Generating code for file TransformCatalogEntry.h... Generating code for file TransformCatalogParams.h... Generating code for file TransformCatalogUtils.h... Generating code for file Validate.h... Generating code for file MolTransforms.h... Generating code for file MonomerInfo.h... Generating code for file new_canon.h... Generating code for file GasteigerCharges.h... Generating code for file GasteigerParams.h... Generating code for file PeriodicTable.h... Generating code for file QueryAtom.h... Generating code for file QueryBond.h... Generating code for file QueryOps.h... Generating code for file PartitionSet.h... Generating code for file RascalClusterOptions.h... Generating code for file RascalDetails.h... Generating code for file RascalMCES.h... Generating code for file RascalOptions.h... Generating code for file RascalResult.h... Generating code for file RDKitBase.h... Generating code for file RDKitQueries.h... Generating code for file ReducedGraphs.h... Generating code for file Resonance.h... Generating code for file RGroupCore.h... Generating code for file RGroupData.h... Generating code for file RGroupDecomp.h... Generating code for file RGroupDecompData.h... Generating code for file RGroupDecompJSONParsers.h... Generating code for file RGroupDecompParams.h... Generating code for file RGroupFingerprintScore.h... Generating code for file RGroupGa.h... Generating code for file RGroupMatch.h... Generating code for file RGroupScore.h... Generating code for file RGroupUtils.h... Generating code for file RingInfo.h... Generating code for file Rings.h... Generating code for file ROMol.h... Generating code for file RWMol.h... Generating code for file SanitException.h... Generating code for file detail.h... Generating code for file ScaffoldNetwork.h... Generating code for file ShapeEncoder.h... Generating code for file ShapeUtils.h... Generating code for file SLNAttribs.h... Generating code for file SLNParse.h... Generating code for file SLNParseOps.h... Generating code for file CanonicalizeStereoGroups.h... Generating code for file SmartsWrite.h... Generating code for file SmilesJSONParsers.h... Generating code for file SmilesParse.h... Generating code for file SmilesParseOps.h... Generating code for file SmilesWrite.h... Generating code for file StereoGroup.h... Generating code for file Pattern.h... Generating code for file ReCharge.h... Generating code for file Stereo.h... Generating code for file StripSmallFragments.h... Generating code for file StructChecker.h... Generating code for file StructCheckerOptions.h... Generating code for file Tautomer.h... Generating code for file Tautomer.h... Generating code for file Utilites.h... Generating code for file Subgraphs.h... Generating code for file SubgraphUtils.h... Generating code for file SubstanceGroup.h... Generating code for file SubstructMatch.h... Generating code for file SubstructUtils.h... Generating code for file PatternFactory.h... Generating code for file SubstructLibrary.h... Generating code for file SubstructLibrarySerialization.h... Generating code for file MemoryMappedFileReader.h... Generating code for file SearchResults.h... Generating code for file Synthon.h... Generating code for file SynthonSet.h... Generating code for file SynthonSpace.h... Generating code for file SynthonSpaceFingerprintSearcher.h... Generating code for file SynthonSpaceHitSet.h... Generating code for file SynthonSpaceRascalSearcher.h... Generating code for file SynthonSpaceSearch_details.h... Generating code for file SynthonSpaceSearcher.h... Generating code for file SynthonSpaceSubstructureSearcher.h... Generating code for file TautomerQuery.h... Generating code for file Snapshot.h... Generating code for file Trajectory.h... Generating code for file CorrMatGenerator.h... Generating code for file InfoBitRanker.h... Generating code for file InfoGainFuncs.h... Generating code for file AlignPoints.h... Generating code for file Conrec.h... Generating code for file PowerEigenSolver.h... Generating code for file Matrix.h... Generating code for file BFGSOpt.h... Generating code for file SquareMatrix.h... Generating code for file SymmMatrix.h... Generating code for file Vector.h... Generating code for file AndQuery.h... Generating code for file EqualityQuery.h... Generating code for file GreaterEqualQuery.h... Generating code for file GreaterQuery.h... Generating code for file LessEqualQuery.h... Generating code for file LessQuery.h... Generating code for file NullQueryAlgebra.h... Generating code for file OrQuery.h... 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Generating code for file Invariant.h... Generating code for file LocaleSwitcher.h... Generating code for file Ranking.h... Generating code for file RDAny.h... Generating code for file RDConfig.h... Generating code for file RDExportMacros.h... Generating code for file RDLog.h... Generating code for file RDProps.h... Generating code for file RDThreads.h... Generating code for file RDValue-doublemagic.h... Generating code for file RDValue-taggedunion.h... Generating code for file RDValue.h... Generating code for file StreamOps.h... Generating code for file types.h... Generating code for file utils.h... Generating code for file versions.h... Generating code for file DistPicker.h... Generating code for file HierarchicalClusterPicker.h... Generating code for file LeaderPicker.h... Generating code for file MaxMinPicker.h... Generating file documentation... Generating docs for file Catalog.h... Generating docs for file CatalogEntry.h... Generating docs for file CatalogParams.h... 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Generating docs for file export.h.../build/reproducible-path/rdkit-202503.6/Code/DistGeom/DistGeomUtils.h:93: warning: The following parameter of DistGeom::constructForceField(const BoundsMatrix &mmat, RDGeom::PointPtrVect &positions, const VECT_CHIRALSET &csets, double weightChiral=1.0, double weightFourthDim=0.1, std::map< std::pair< int, int >, double > *extraWeights=nullptr, double basinSizeTol=5.0, boost::dynamic_bitset<> *fixedPts=nullptr) is not documented: parameter 'fixedPts' /build/reproducible-path/rdkit-202503.6/Code/DistGeom/ChiralViolationContribs.h:53: warning: argument 'cset' of command @param is not found in the argument list of DistGeom::ChiralViolationContribs::ChiralViolationContribs(ForceFields::ForceField *owner) /build/reproducible-path/rdkit-202503.6/Code/DistGeom/ChiralViolationContribs.h:53: warning: argument 'weight' of command @param is not found in the argument list of DistGeom::ChiralViolationContribs::ChiralViolationContribs(ForceFields::ForceField *owner) Generating docs for file FileParseException.h... Generating docs for file hanoiSort.h... Generating docs for file Invariant.h... Generating docs for file LocaleSwitcher.h... Generating docs for file Ranking.h... Generating docs for file RDAny.h... Generating docs for file RDConfig.h... Generating docs for file RDExportMacros.h... Generating docs for file RDLog.h... Generating docs for file RDProps.h... Generating docs for file RDThreads.h... Generating docs for file RDValue-doublemagic.h... Generating docs for file RDValue-taggedunion.h... Generating docs for file RDValue.h... Generating docs for file StreamOps.h... Generating docs for file types.h... Generating docs for file utils.h... Generating docs for file versions.h... Generating docs for file DistPicker.h... Generating docs for file HierarchicalClusterPicker.h... Generating docs for file LeaderPicker.h... Generating docs for file MaxMinPicker.h... Generating page documentation... Generating docs for page deprecated... Generating group documentation... Generating class documentation... Generating docs for compound BitVect... Generating docs for compound Data3Ddescriptors... Generating docs for compound DatastructsException... Generating docs for compound ExplicitBitVect... Generating docs for compound IndexErrorException... Generating docs for compound KeyErrorException... Generating docs for compound MolData3Ddescriptors... Generating docs for compound Point2D... Generating docs for compound PySequenceHolder< T >... Generating docs for compound set< K >... Generating docs for nested compound set< K >::iterator... Generating docs for nested compound set< K >::const_iterator... Generating docs for nested compound set< K >::reverse_iterator... Generating docs for nested compound set< K >::const_reverse_iterator... Generating docs for compound SparseBitVect... Generating docs for compound ValueErrorException... Generating concept documentation... Generating module documentation... Generating namespace documentation... Generating docs for namespace better_enums Generating docs for compound better_enums::optional< T >... Generating docs for compound better_enums::_eat_assign< EnumType >... Generating docs for compound better_enums::_iterable< Element >... Generating docs for compound better_enums::_initialize_at_program_start< Enum >... Generating docs for compound better_enums::map_compare< T >... Generating docs for compound better_enums::map_compare< const char * >... Generating docs for compound better_enums::map_compare< const wchar_t * >... Generating docs for compound better_enums::map< Enum, T, Compare >... Generating docs for namespace BFGSOpt Generating docs for namespace boost Generating docs for namespace boost::logging Generating docs for compound boost::logging::rdLogger... Generating docs for namespace boost_adaptbx Generating docs for namespace boost_adaptbx::python Generating docs for compound boost_adaptbx::python::streambuf... Generating docs for nested compound boost_adaptbx::python::streambuf::istream... Generating docs for nested compound boost_adaptbx::python::streambuf::ostream... Generating docs for compound boost_adaptbx::python::streambuf_capsule... Generating docs for compound boost_adaptbx::python::ostream... Generating docs for namespace ChemicalFeatures Generating docs for compound ChemicalFeatures::ChemicalFeature... Generating docs for compound ChemicalFeatures::FreeChemicalFeature... Generating docs for namespace conrec Generating docs for compound conrec::ConrecSegment... Generating docs for compound conrec::tplHash... Generating docs for namespace DistGeom Generating docs for compound DistGeom::BoundsMatrix... Generating docs for compound DistGeom::ChiralSet... Generating docs for compound DistGeom::ChiralViolationContribsParams... Generating docs for compound DistGeom::ChiralViolationContribs... Generating docs for compound DistGeom::DistViolationContribsParams... 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Generating docs for compound DistGeom::Fo/build/reproducible-path/rdkit-202503.6/Code/DistGeom/FourthDimContribs.h:36: warning: argument 'idx' of command @param is not found in the argument list of DistGeom::FourthDimContribs::FourthDimContribs(ForceFields::ForceField *owner) /build/reproducible-path/rdkit-202503.6/Code/DistGeom/FourthDimContribs.h:36: warning: argument 'weight' of command @param is not found in the argument list of DistGeom::FourthDimContribs::FourthDimContribs(ForceFields::ForceField *owner) /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraint.h:24: warning: argument 'minAngle' of command @param is not found in the argument list of ForceFields::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraint.h:24: warning: argument 'maxAngle' of command @param is not found in the argument list of ForceFields::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraint.h:24: warning: The following parameters of ForceFields::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) are not documented: parameter 'minAngleDeg' parameter 'maxAngleDeg' /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.h:65: warning: argument 'minAngle' of command @param is not found in the argument list of ForceFields::AngleConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, unsigned int idx3, bool relative, double minAngleDeg, double maxAngleDeg, double forceConst) /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.h:65: warning: argument 'maxAngle' of command @param is not found in the argument list of ForceFields::AngleConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, unsigned int idx3, bool relative, double minAngleDeg, double maxAngleDeg, double forceConst) /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.h:65: warning: The following parameters of ForceFields::AngleConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, unsigned int idx3, bool relative, double minAngleDeg, double maxAngleDeg, double forceConst) are not documented: parameter 'minAngleDeg' parameter 'maxAngleDeg' /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.h:53: warning: argument 'minAngle' of command @param is not found in the argument list of ForceFields::AngleConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.h:53: warning: argument 'maxAngle' of command @param is not found in the argument list of ForceFields::AngleConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /build/reproducible-path/rdkit-202503.6/Code/ForceField/AngleConstraints.h:53: warning: The following parameters of ForceFields::AngleConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) are not documented: parameter 'minAngleDeg' parameter 'maxAngleDeg' /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraints.h:61: warning: argument 'forceConst' of command @param is not found in the argument list of ForceFields::DistanceConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, bool relative, double minLen, double maxLen, double forceConstant) /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraints.h:61: warning: The following parameter of ForceFields::DistanceConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, bool relative, double minLen, double maxLen, double forceConstant) is not documented: parameter 'forceConstant' /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraints.h:50: warning: argument 'forceConst' of command @param is not found in the argument list of ForceFields::DistanceConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, double minLen, double maxLen, double forceConstant) /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraints.h:50: warning: The following parameter of ForceFields::DistanceConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, double minLen, double maxLen, double forceConstant) is not documented: parameter 'forceConstant' /build/reproducible-path/rdkit-202503.6/Code/ForceField/ForceField.h:159: warning: argument 'snapshotFreq' of command @param is not found in the argument list of ForceFields::ForceField::minimize(unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) /build/reproducible-path/rdkit-202503.6/Code/ForceField/ForceField.h:159: warning: argument 'snapshotVect' of command @param is not found in the argument list of ForceFields::ForceField::minimize(unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) /build/reproducible-path/rdkit-202503.6/Code/ForceField/ForceField.h:144: warning: The following parameters of ForceFields::ForceField::minimize(unsigned int snapshotFreq, RDKit::SnapshotVect *snapshotVect, unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) are not documented: parameter 'snapshotFreq' parameter 'snapshotVect' /build/reproducible-path/rdkit-202503.6/Code/ForceField/PositionConstraint.h:25: warning: argument 'minDispl' of command @param is not found in the argument list of ForceFields::PositionConstraintContrib::PositionConstraintContrib(ForceField *owner, unsigned int idx, double maxDispl, double forceConst) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/AngleBend.h:28: warning: argument 'angleType' of command @param is not found in the argument list of ForceFields::MMFF::AngleBendContrib::addTerm(unsigned int idx1, unsigned int idx2, unsigned int idx3, const MMFFAngle *mmffAngleParams, const MMFFProp *mmffPropParamsCentralAtom) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/AngleBend.h:28: warning: The following parameters of ForceFields::MMFF::AngleBendContrib::addTerm(unsigned int idx1, unsigned int idx2, unsigned int idx3, const MMFFAngle *mmffAngleParams, const MMFFProp *mmffPropParamsCentralAtom) are not documented: parameter 'mmffAngleParams' parameter 'mmffPropParamsCentralAtom' /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/BondStretch.h:27: warning: argument 'bondType' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::addTerm(const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/BondStretch.h:27: warning: argument 'end1Params' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::addTerm(const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/BondStretch.h:27: warning: argument 'end2Params' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::addTerm(const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/BondStretch.h:27: warning: The following parameter of ForceFields::MMFF::BondStretchContrib::addTerm(const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) is not documented: parameter 'mmffBondParams' /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Nonbonded.h:81: warning: argument 'idx1' of command @param is not found in the argument list of ForceFields::MMFF::EleContrib::EleContrib(ForceField *owner) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Nonbonded.h:81: warning: argument 'idx2' of command @param is not found in the argument list of ForceFields::MMFF::EleContrib::EleContrib(ForceField *owner) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/OopBend.h:26: warning: The following parameter of ForceFields::MMFF::OopBendContrib::addTerm(unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, const MMFFOop *mmffOopParams) is not documented: parameter 'mmffOopParams' /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/StretchBend.h:32: warning: argument 'angleType' of command @param is not found in the argument list of ForceFields::MMFF::StretchBendContrib::addTerm(const unsigned int idx1, const unsigned int idx2, const unsigned int idx3, const MMFFStbn *mmffStbnParams, const MMFFAngle *mmffAngleParams, const MMFFBond *mmffBondParams1, const MMFFBond *mmffBondParams2) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/StretchBend.h:32: warning: The following parameters of ForceFields::MMFF::StretchBendContrib::addTerm(const unsigned int idx1, const unsigned int idx2, const unsigned int idx3, const MMFFStbn *mmffStbnParams, const MMFFAngle *mmffAngleParams, const MMFFBond *mmffBondParams1, const MMFFBond *mmffBondParams2) are not documented: parameter 'mmffStbnParams' parameter 'mmffAngleParams' parameter 'mmffBondParams1' parameter 'mmffBondParams2' /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/TorsionAngle.h:33: warning: argument 'torsionType' of command @param is not found in the argument list of ForceFields::MMFF::TorsionAngleContrib::addTerm(unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, const MMFFTor *mmffTorParams) /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/TorsionAngle.h:33: warning: The following parameter of ForceFields::MMFF::TorsionAngleContrib::addTerm(unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, const MMFFTor *mmffTorParams) is not documented: parameter 'mmffTorParams' /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Inversion.h:27: warning: The following parameter of ForceFields::UFF::InversionContrib::InversionContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, int at2AtomicNum, bool isCBoundToO, double oobForceScalingFactor=1.0) is not documented: parameter 'oobForceScalingFactor' urthDimContribs... Generating docs for namespace ForceFields Generating docs for compound ForceFields::AngleConstraintContrib... Generating docs for compound ForceFields::AngleConstraintContribsParams... Generating docs for compound ForceFields::AngleConstraintContribs... Generating docs for compound ForceFields::ForceFieldContrib... Generating docs for compound ForceFields::DistanceConstraintContrib... Generating docs for compound ForceFields::DistanceConstraintContribsParams... Generating docs for compound ForceFields::DistanceConstraintContribs... Generating docs for compound ForceFields::ForceField... Generating docs for compound ForceFields::PositionConstraintContrib... Generating docs for compound ForceFields::TorsionConstraintContrib... Generating docs for namespace ForceFields::CrystalFF Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribsParams... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribs... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribM6... Generating docs for compound ForceFields::CrystalFF::ExpTorsionAngle... Generating docs for compound ForceFields::CrystalFF::CrystalFFDetails... Generating docs for namespace ForceFields::MMFF Generating docs for compound ForceFields::MMFF::AngleBendContrib... Generating docs for compound ForceFields::MMFF::BondStretchContrib... Generating docs for compound ForceFields::MMFF::NonbondedContrib... Generating docs for compound ForceFields::MMFF::VdWContrib... Generating docs for compound ForceFields::MMFF::EleContrib... Generating docs for compound ForceFields::MMFF::OopBendContrib... Generating docs for compound ForceFields::MMFF::MMFFDef... Generating docs for compound ForceFields::MMFF::MMFFProp... Generating docs for compound ForceFields::MMFF::MMFFPBCI... Generating docs for compound ForceFields::MMFF::MMFFChg... Generating docs for compound ForceFields::MMFF::MMFFBond... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurie... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEle... Generating docs for compound ForceFields::MMFF::MMFFAngle... Generating docs for compound ForceFields::MMFF::MMFFStbn... Generating docs for compound ForceFields::MMFF::MMFFOop... Generating docs for compound ForceFields::MMFF::MMFFTor... Generating docs for compound ForceFields::MMFF::MMFFVdW... Generating docs for compound ForceFields::MMFF::MMFFVdWRijstarEps... Generating docs for compound ForceFields::MMFF::MMFFAromCollection... Generating docs for compound ForceFields::MMFF::MMFFDefCollection... Generating docs for compound ForceFields::MMFF::MMFFPropCollection... Generating docs for compound ForceFields::MMFF::MMFFPBCICollection... Generating docs for compound ForceFields::MMFF::MMFFChgCollection... Generating docs for compound ForceFields::MMFF::MMFFBondCollection... Generating docs for compound ForceFields::MMFF::MMFFBndkCollection... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurieCollection... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEleCollection... Generating docs for compound ForceFields::MMFF::MMFFAngleCollection... Generating docs for compound ForceFields::MMFF::MMFFStbnCollection... Generating docs for compound ForceFields::MMFF::MMFFDfsbCollection... Generating docs for compound ForceFields::MMFF::MMFFOopCollection... Generating docs for compound ForceFields::MMFF::MMFFTorCollection... Generating docs for compound ForceFields::MMFF::MMFFVdWCollection... Generating docs for compound ForceFields::MMFF::StretchBendContrib... Generating docs for compound ForceFields::MMFF::TorsionAngleContrib... Generating docs for namespace ForceFields::MMFF::Utils Generating docs for namespace ForceFields::UFF Generating docs for compound ForceFields::UFF::AngleBendContrib... Generating docs for compound ForceFields::UFF::BondStretchContrib... Generating docs for compound ForceFields::UFF::InversionContrib... Generating docs for compound ForceFields::UFF::InversionContribsParams... Generating docs for compound ForceFields::UFF::InversionContribs... Gen/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/RDDepictor.h:393: warning: argument 'refPattern' of command @param is not found in the argument list of RDDepict::generateDepictionMatching3DStructure(RDKit::ROMol &mol, const RDKit::ROMol &reference, int confId=-1, RDKit::ROMol *referencePattern=nullptr, bool acceptFailure=false, bool forceRDKit=false) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/RDDepictor.h:393: warning: The following parameter of RDDepict::generateDepictionMatching3DStructure(RDKit::ROMol &mol, const RDKit::ROMol &reference, int confId=-1, RDKit::ROMol *referencePattern=nullptr, bool acceptFailure=false, bool forceRDKit=false) is not documented: parameter 'referencePattern' erating docs for compound ForceFields::UFF::vdWContrib... Generating docs for compound ForceFields::UFF::UFFBond... Generating docs for compound ForceFields::UFF::UFFAngle... Generating docs for compound ForceFields::UFF::UFFTor... Generating docs for compound ForceFields::UFF::UFFInv... Generating docs for compound ForceFields::UFF::UFFVdW... Generating docs for compound ForceFields::UFF::AtomicParams... Generating docs for compound ForceFields::UFF::ParamCollection... Generating docs for compound ForceFields::UFF::TorsionAngleContrib... Generating docs for namespace ForceFields::UFF::Params Generating docs for namespace ForceFields::UFF::Utils Generating docs for namespace Invar Generating docs for compound Invar::Invariant... Generating docs for namespace MolTransforms Generating docs for namespace Queries Generating docs for compound Queries::AndQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::EqualityQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::GreaterEqualQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::GreaterQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::LessEqualQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::LessQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::OrQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::Int2Type< v >... Generating docs for compound Queries::Query< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::RangeQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::SetQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::XOrQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for namespace Rankers Generating docs for namespace RDCatalog Generating docs for compound RDCatalog::Catalog< entryType, paramType >... Generating docs for compound RDCatalog::HierarchCatalog< entryType, paramType, orderType >... Generating docs for nested compound RDCatalog::HierarchCatalog< entryType, paramType, orderType >::vertex_entry_t... Generating docs for compound RDCatalog::CatalogEntry... Generating docs for compound RDCatalog::CatalogParams... Generating docs for namespace RDDataManip Generating docs for compound RDDataManip::MetricMatrixCalc< vectType, entryType >... Generating docs for namespace RDDepict Generating docs for compound RDDepict::gtIIPair... Generating docs for compound RDDepict::EmbeddedAtom... Generating docs for compound RDDepict::EmbeddedFrag... Generating docs for compound RDDepict::DepictException... Generating docs for compound RDDepict::Compute2DCoordParameters... Generating docs for compound RDDepict::ConstrainedDepictionParams... Generating docs for compound RDDepict::CoordinateTemplates... Generating docs for namespace RDFeatures Generating docs for compound RDFeatures::ExplicitFeature< FAMILYMARKER, TYPEMARKER, LOCTYPE >... Generating docs for compound RDFeatures::ImplicitFeature< FAMILYMARKER, TYPEMARKER, LOCTYPE >... Generating docs for namespace RDGeom Generating docs for compound RDGeom::GridException... Generating docs for compound RDGeom::Grid3D< VectorType, ValueType1, ValueType2 >... Generating docs for compound RDGeom::Point... Generating docs for compound RDGeom::Point3D... Generating docs for compound RDGeom::Point2D... Generating docs for compound RDGeom::PointND... Generating docs for compound RDGeom::Transform2D... Generating docs for compound RDGeom::Transform3D... Generating docs for compound RDGeom::UniformGrid3D... Generating docs for compound RDGeom::UniformRealValueGrid3D... Generating docs for namespace RDInfoTheory Generating docs for compound RDInfoTheory::BitCorrMatGenerator... Generating docs for compound RDInfoTheory::InfoBitRanker... Ge/build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstanceGroup.h:283: warning: The following parameter of RDKit::addSubstanceGroup(ROMol &mol, SubstanceGroup sgroup) is not documented: parameter 'mol' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SequenceParsers.h:105: warning: argument 'seq' of command @param is not found in the argument list of RDKit::HELMToMol(const char *helm, bool sanitize=true) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SequenceParsers.h:105: warning: The following parameter of RDKit::HELMToMol(const char *helm, bool sanitize=true) is not documented: parameter 'helm' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Fingerprints.h:69: warning: The following parameter of RDKit::LayeredFingerprintMol(const ROMol &mol, unsigned int layerFlags=0xFFFFFFFF, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, std::vector< unsigned int > *atomCounts=nullptr, ExplicitBitVect *setOnlyBits=nullptr, bool branchedPaths=true, const std::vector< std::uint32_t > *fromAtoms=nullptr) is not documented: parameter 'fromAtoms' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesWrite.h:226: warning: argument 'doRandom' of command @param is not found in the argument list of RDKit::MolFragmentToSmiles(const ROMol &mol, const std::vector< int > &atomsToUse, const std::vector< int > *bondsToUse=nullptr, const std::vector< std::string > *atomSymbols=nullptr, const std::vector< std::string > *bondSymbols=nullptr, bool doIsomericSmiles=true, bool doKekule=false, int rootedAtAtom=-1, bool canonical=true, bool allBondsExplicit=false, bool allHsExplicit=false) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:35: warning: argument 'MolWriterParams' of command @param is not found in the argument list of RDKit::MolToMolBlock(const ROMol &mol, const MolWriterParams ¶ms, int confId=-1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:35: warning: The following parameter of RDKit::MolToMolBlock(const ROMol &mol, const MolWriterParams ¶ms, int confId=-1) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:110: warning: argument 'MolWriterParams' of command @param is not found in the argument list of RDKit::MolToMolFile(const ROMol &mol, const std::string &fName, const MolWriterParams ¶ms, int confId=-1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:110: warning: The following parameter of RDKit::MolToMolFile(const ROMol &mol, const std::string &fName, const MolWriterParams ¶ms, int confId=-1) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/MarvinParser.h:180: warning: The following parameters of RDKit::MolToMrvBlock(const ROMol &mol, bool includeStereo=true, int confId=-1, bool kekulize=true, bool prettyPrint=false) are not documented: parameter 'mol' parameter 'includeStereo' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/MarvinParser.h:155: warning: The following parameters of RDKit::MolToMrvFile(const ROMol &mol, const std::string &fName, bool includeStereo=true, int confId=-1, bool kekulize=true, bool prettyPrint=false) are not documented: parameter 'mol' parameter 'fName' parameter 'includeStereo' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:226: warning: argument 'fName' of command @param is not found in the argument list of RDKit::MolToPDBFile(const ROMol &mol, const std::string &fname, int confId=-1, unsigned int flavor=0) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:226: warning: The following parameter of RDKit::MolToPDBFile(const ROMol &mol, const std::string &fname, int confId=-1, unsigned int flavor=0) is not documented: parameter 'fname' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:96: warning: argument 'MolWriterParams' of command @param is not found in the argument list of RDKit::MolToV2KMolBlock(const ROMol &mol, const MolWriterParams ¶ms=MolWriterParams(), int confId=-1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:96: warning: The following parameter of RDKit::MolToV2KMolBlock(const ROMol &mol, const MolWriterParams ¶ms=MolWriterParams(), int confId=-1) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:65: warning: argument 'MolWriterParams' of command @param is not found in the argument list of RDKit::MolToV3KMolBlock(const ROMol &mol, const MolWriterParams ¶ms, int confId=-1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:65: warning: The following parameter of RDKit::MolToV3KMolBlock(const ROMol &mol, const MolWriterParams ¶ms, int confId=-1) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:141: warning: argument 'MolWriterParams' of command @param is not found in the argument list of RDKit::MolToV3KMolFile(const ROMol &mol, const std::string &fName, const MolWriterParams ¶ms, int confId=-1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileWriters.h:141: warning: The following parameter of RDKit::MolToV3KMolFile(const ROMol &mol, const std::string &fName, const MolWriterParams ¶ms, int confId=-1) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Fingerprints.h:120: warning: The following parameter of RDKit::PatternFingerprintMol(const ROMol &mol, unsigned int fpSize=2048, std::vector< unsigned int > *atomCounts=nullptr, ExplicitBitVect *setOnlyBits=nullptr, bool tautomericFingerprint=false) is not documented: parameter 'tautomericFingerprint' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Fingerprints.h:27: warning: argument 'useBondOrders' of command @param is not found in the argument list of RDKit::RDKFingerprintMol(const ROMol &mol, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, unsigned int nBitsPerHash=2, bool useHs=true, double tgtDensity=0.0, unsigned int minSize=128, bool branchedPaths=true, bool useBondOrder=true, std::vector< std::uint32_t > *atomInvariants=nullptr, const std::vector< std::uint32_t > *fromAtoms=nullptr, std::vector< std::vector< std::uint32_t > > *atomBits=nullptr, std::map< std::uint32_t, std::vector< std::vector< int > > > *bitInfo=nullptr) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Fingerprints.h:27: warning: The following parameters of RDKit::RDKFingerprintMol(const ROMol &mol, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, unsigned int nBitsPerHash=2, bool useHs=true, double tgtDensity=0.0, unsigned int minSize=128, bool branchedPaths=true, bool useBondOrder=true, std::vector< std::uint32_t > *atomInvariants=nullptr, const std::vector< std::uint32_t > *fromAtoms=nullptr, std::vector< std::vector< std::uint32_t > > *atomBits=nullptr, std::map< std::uint32_t, std::vector< std::vector< int > > > *bitInfo=nullptr) are not documented: parameter 'useBondOrder' parameter 'bitInfo' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionRunner.h:94: warning: The following parameter of RDKit::reduceProductToSideChains(const ROMOL_SPTR &product, bool addDummyAtoms=true) is not documented: parameter 'product' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/ChemTransforms.h:114: warning: argument 'useChirality' of command @param is not found in the argument list of RDKit::replaceCore(const ROMol &mol, const ROMol &core, const MatchVectType &matchVect, bool replaceDummies=true, bool labelByIndex=false, bool requireDummyMatch=false) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionRunner.h:66: warning: argument 'reactantTemplateIdx' of command @param is not found in the argument list of RDKit::run_Reactant(const ChemicalReaction &rxn, const ROMOL_SPTR &reactant, unsigned int reactantIdx) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionRunner.h:66: warning: The following parameters of RDKit::run_Reactant(const ChemicalReaction &rxn, const ROMOL_SPTR &reactant, unsigned int reactantIdx) are not documented: parameter 'rxn' parameter 'reactantIdx' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructMatch.h:87: warning: argument 'matchParams' of command @param is not found in the argument list of RDKit::SubstructMatch(const ROMol &mol, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructMatch.h:87: warning: The following parameter of RDKit::SubstructMatch(const ROMol &mol, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructMatch.h:100: warning: argument 'matchParams' of command @param is not found in the argument list of RDKit::SubstructMatch(ResonanceMolSupplier &resMolSuppl, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructMatch.h:100: warning: The following parameter of RDKit::SubstructMatch(ResonanceMolSupplier &resMolSuppl, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructMatch.h:155: warning: The following parameter of RDKit::SubstructMatch(T1 &mol, const T2 &query, std::vector< MatchVectType > &matchVect, bool uniquify=true, bool recursionPossible=true, bool useChirality=false, bool useQueryQueryMatches=false, unsigned int maxMatches=1000, int numThreads=1) is not documented: parameter 'numThreads' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Reaction.h:219: warning: argument 'maxProducts' of command @param is not found in the argument list of RDKit::ChemicalReaction::runReactants(const MOL_SPTR_VECT reactants, unsigned int numProducts=1000) const /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Reaction.h:219: warning: The following parameter of RDKit::ChemicalReaction::runReactants(const MOL_SPTR_VECT reactants, unsigned int numProducts=1000) const is not documented: parameter 'numProducts' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatcherBase::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const=0 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: The following parameter of RDKit::FilterMatcherBase::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const=0 is not documented: parameter 'matchVect' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatchers.h:336: warning: argument 'matches' of command @param is not found in the argument list of RDKit::SmartsMatcher::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 98 in file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: The following parameter of RDKit::SmartsMatcher::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatchers.h:430: warning: argument 'matches' of command @param is not found in the argument list of RDKit::ExclusionList::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 98 in file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: The following parameter of RDKit::ExclusionList::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::AtomEnvironment::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, const bool hashResults=false, const std::uint64_t fpSize=0) const=0 are not documented: parameter 'AdditionalOutput' parameter 'fpSize' nerating docs for namespace RDKit Generating docs for compound RDKit::Atom... Generating docs for compound RDKit::atomicData... Generating docs for compound RDKit::AtomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::HeteroatomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::AromaticAtomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::QueryAtomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::MatchingAtomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::Bond... Generating docs for compound RDKit::BondIterator_... Generating docs for compound RDKit::ConstBondIterator_... Generating docs for compound RDKit::CartesianProductStrategy... Generating docs for compound RDKit::EnumerationParams... Generating docs for compound RDKit::EnumerateLibrary... Generating docs for compound RDKit::EnumerateLibraryBase... Generating docs for compound RDKit::EnumerationStrategyException... Generating docs for compound RDKit::EnumerationStrategyBase... Generating docs for compound RDKit::EvenSamplePairsStrategy... Generating docs for compound RDKit::RandomSampleStrategy... Generating docs for compound RDKit::RandomSampleAllBBsStrategy... Generating docs for compound RDKit::ChemicalReactionException... Generating docs for compound RDKit::ChemicalReaction... Generating docs for compound RDKit::ReactionFingerprintParams... Generating docs for compound RDKit::ChemicalReactionParserException... Generating docs for compound RDKit::ReactionPicklerException... Generating docs for compound RDKit::ReactionPickler... Generating docs for compound RDKit::RxnSanitizeException... Generating docs for compound RDKit::MolzipParams... Generating docs for compound RDKit::ConformerException... Generating docs for compound RDKit::Conformer... Generating docs for compound RDKit::MaxFindBondOrdersItersExceeded... Generating docs for compound RDKit::MolWriterParams... Generating docs for compound RDKit::StereoBondThresholds... Generating docs for compound RDKit::MolWriter... Generating docs for compound RDKit::SmilesWriter... Generating docs for compound RDKit::SDWriter... Generating docs for compound RDKit::TDTWriter... Generating docs for compound RDKit::PDBWriter... Generating docs for compound RDKit::PNGMetadataParams... Generating docs for compound RDKit::FilterCatalogParams... Generating docs for compound RDKit::FilterCatalog... Generating docs for compound RDKit::FilterCatalogEntry... Generating docs for compound RDKit::FilterMatch... Generating docs for compound RDKit::FilterMatcherBase... Generating docs for compound RDKit::SmartsMatcher... Generating docs for compound RDKit::ExclusionList... Generating docs for compound RDKit::FilterHierarchyMatcher... Generating docs for compound RDKit::FilterData_t... Generating docs for compound RDKit::FilterProperty_t... Generating docs for compound RDKit::AdditionalOutput... Generating docs for compound RDKit::FingerprintArguments... Generating docs for compound RDKit::AtomEnvironment< OutputType >... Generating docs for compound RDKit::AtomEnvironmentGenerator< OutputType >... Generating docs for compound RDKit::AtomInvariantsGenerator... Generating docs for compound RDKit::BondInvariantsGenerator... Generating docs for compound RDKit::FingerprintFuncArguments... Generating docs for compound RDKit::FingerprintGenerator< OutputType >... Generating docs for compound RDKit::UnimplementedFPException... Generating docs for compound RDKit::MCSAtomCompareParameters... Generating docs for compound RDKit::MCSBondCompareParameters... Generating docs for compound RDKit::MCSProgressData... Generating docs for compound RDKit::MCSParameters... Generating docs for compound RDKit::MCSResult... Generating docs for compound RDKit::FragCatalogEntry... Generating docs for compound RDKit::FragCatGenerator... Generating docs for compound RDKit::FragCatParams... Generating docs for compound RDKit::FragFPGenerator... Generating docs for compound RDKit::MarvinWriterException... Generating docs for compound RDKit::MarvinArrow... Generating docs for compound RDKit::MarvinP/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:71: warning: argument highlight_atoms from the argument list of RDKit::MolDraw2D::drawMolecule has multiple @param documentation sections /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:71: warning: The following parameter of RDKit::MolDraw2D::drawMolecule(const ROMol &mol, const std::string &legend, const std::vector< int > *highlight_atoms, const std::vector< int > *highlight_bonds, const std::map< int, DrawColour > *highlight_atom_map=nullptr, const std::map< int, DrawColour > *highlight_bond_map=nullptr, const std::map< int, double > *highlight_radii=nullptr, int confId=-1) is not documented: parameter 'highlight_bonds' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: argument 'highlight_atom_map' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int > > *highlight_atoms=nullptr, const std::vector< std::vector< int > > *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_bond_maps=nullptr, const std::vector< std::map< int, double > > *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: argument 'highlight_bond_map' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int > > *highlight_atoms=nullptr, const std::vector< std::vector< int > > *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_bond_maps=nullptr, const std::vector< std::map< int, double > > *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: argument 'confId' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int > > *highlight_atoms=nullptr, const std::vector< std::vector< int > > *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_bond_maps=nullptr, const std::vector< std::map< int, double > > *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: argument highlight_atoms from the argument list of RDKit::MolDraw2D::drawMolecules has multiple @param documentation sections /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:149: warning: The following parameters of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int > > *highlight_atoms=nullptr, const std::vector< std::vector< int > > *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour > > *highlight_bond_maps=nullptr, const std::vector< std::map< int, double > > *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) are not documented: parameter 'highlight_bonds' parameter 'highlight_atom_maps' parameter 'highlight_bond_maps' parameter 'confIds' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Resonance.h:114: warning: argument 'numThreads' of command @param is not found in the argument list of RDKit::ResonanceMolSupplier::ResonanceMolSupplier(ROMol &mol, unsigned int flags=0, unsigned int maxStructs=1000) lus... Generating docs for compound RDKit::MarvinCondition... Generating docs for compound RDKit::MarvinAttachmentPoint... Generating docs for compound RDKit::MarvinAtom... Generating docs for compound RDKit::MarvinBondStereo... Generating docs for compound RDKit::MarvinBond... Generating docs for compound RDKit::MarvinRectangle... Generating docs for compound RDKit::MarvinMolBase... Generating docs for compound RDKit::MarvinSruCoModSgroup... Generating docs for compound RDKit::MarvinDataSgroup... Generating docs for compound RDKit::MarvinSuperatomSgroupExpanded... Generating docs for compound RDKit::MarvinMultipleSgroup... Generating docs for compound RDKit::MarvinMulticenterSgroup... Generating docs for compound RDKit::MarvinGenericSgroup... Generating docs for compound RDKit::MarvinMonomerSgroup... Generating docs for compound RDKit::MarvinSuperatomSgroup... Generating docs for compound RDKit::MarvinMol... Generating docs for compound RDKit::MarvinReaction... Generating docs for compound RDKit::MarvinStereoGroup... Generating docs for compound RDKit::MrvWriterParams... Generating docs for compound RDKit::MolBundle... Generating docs for compound RDKit::FixedMolSizeMolBundle... Generating docs for compound RDKit::MolCatalogEntry... Generating docs for compound RDKit::MolCatalogParams... Generating docs for compound RDKit::FeatureFileParseException... Generating docs for compound RDKit::MolChemicalFeature... Generating docs for compound RDKit::MolChemicalFeatureDef... Generating docs for compound RDKit::MolChemicalFeatureFactory... Generating docs for compound RDKit::MolDraw2D... Generating docs for compound RDKit::MolDraw2DCairo... Generating docs for compound RDKit::DrawColour... Generating docs for compound RDKit::MolDrawOptions... Generating docs for compound RDKit::MolDraw2DJS... Generating docs for compound RDKit::MolDraw2DSVG... Generating docs for compound RDKit::MolDraw2Dwx... Generating docs for compound RDKit::MolDraw2DQt... Generating docs for compound RDKit::MolPicklerException... Generating docs for compound RDKit::MolPickler... Generating docs for compound RDKit::AtomMonomerInfo... Generating docs for compound RDKit::AtomPDBResidueInfo... Generating docs for compound RDKit::GasteigerParams... Generating docs for compound RDKit::PeriodicTable... Generating docs for compound RDKit::QueryAtom... Generating docs for compound RDKit::QueryBond... Generating docs for compound RDKit::AtomRingQuery... Generating docs for compound RDKit::RecursiveStructureQuery... Generating docs for compound RDKit::HasPropQuery< TargetPtr >... Generating docs for compound RDKit::HasPropWithValueQueryBase... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, T >... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, std::string >... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, ExplicitBitVect >... Generating docs for compound RDKit::ResonanceMolSupplierCallback... Generating docs for compound RDKit::ResonanceMolSupplier... Generating docs for compound RDKit::RCore... Generating docs for compound RDKit::RGroupData... Generating docs for compound RDKit::RGroupDecompositionProcessResult... Generating docs for compound RDKit::UsedLabelMap... Generating docs for compound RDKit::RGroupDecomposition... Generating docs for compound RDKit::RGroupDecompData... Generating docs for nested compound RDKit::RGroupDecompData::UsedLabels... Generating docs for compound RDKit::RGroupDecompositionParameters... Generating docs for compound RDKit::VarianceDataForLabel... Generating docs for compound RDKit::FingerprintVarianceScoreData... Generating docs for compound RDKit::RGroupDecompositionChromosome... Generating docs for compound RDKit::GaResult... Generating docs for compound RDKit::RGroupGa... Generating docs for compound RDKit::RGroupMatch... Generating docs for compound RDKit::CartesianProduct... Generating docs for compound RDKit::RGroupScorer... Generating docs for compound RDKit::RingInfo... Generating docs for compound RDKit::CXXAtomIterator< Graph, Vertex, Iterator >... Generati/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/Abbreviations.h:104: warning: The following parameter of RDKit::Abbreviations::findApplicableAbbreviationMatches(const ROMol &mol, const std::vector< AbbreviationDefinition > &abbrevs, double maxCoverage=0.4) is not documented: parameter 'mol' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::AtomPair::AtomPairAtomEnv::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, const bool hashResults=false, const std::uint64_t fpSize=0) const are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/AtomPairs.h:97: warning: The following parameter of RDKit::AtomPairs::getHashedAtomPairFingerprint(const ROMol &mol, unsigned int nBits=2048, unsigned int minLength=1, unsigned int maxLength=maxPathLen - 1, const std::vector< std::uint32_t > *fromAtoms=nullptr, const std::vector< std::uint32_t > *ignoreAtoms=nullptr, const std::vector< std::uint32_t > *atomInvariants=nullptr, bool includeChirality=false, bool use2D=true, int confId=-1) is not documented: parameter 'confId' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintUtil.h:75: warning: The following parameter of RDKit::AtomPairs::getTopologicalTorsionCode(const std::vector< std::uint32_t > &atomCodes, bool includeChirality=false) is not documented: parameter 'includeChirality' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Canon.h:98: warning: The following parameters of RDKit::Canon::canonicalizeFragment(ROMol &mol, int atomIdx, std::vector< AtomColors > &colors, const std::vector< unsigned int > &ranks, MolStack &molStack, const boost::dynamic_bitset<> *bondsInPlay=nullptr, const std::vector< std::string > *bondSymbols=nullptr, bool doIsomericSmiles=false, bool doRandom=false, bool doChiralInversions=true) are not documented: parameter 'bondsInPlay' parameter 'bondSymbols' parameter 'doIsomericSmiles' parameter 'doRandom' parameter 'doChiralInversions' ng docs for nested compound RDKit::CXXAtomIterator< Graph, Vertex, Iterator >::CXXAtomIter... Generating docs for compound RDKit::CXXBondIterator< Graph, Edge, Iterator >... Generating docs for nested compound RDKit::CXXBondIterator< Graph, Edge, Iterator >::CXXBondIter... Generating docs for compound RDKit::ROMol... Generating docs for compound RDKit::RWMol... Generating docs for compound RDKit::MolSanitizeException... Generating docs for compound RDKit::AtomSanitizeException... Generating docs for compound RDKit::AtomValenceException... Generating docs for compound RDKit::AtomKekulizeException... Generating docs for compound RDKit::KekulizeException... Generating docs for compound RDKit::SLNParseException... Generating docs for compound RDKit::RigorousEnhancedStereoException... Generating docs for compound RDKit::SmilesWriteParams... Generating docs for compound RDKit::StereoGroup... Generating docs for compound RDKit::SubstanceGroupException... Generating docs for compound RDKit::SubstanceGroup... Generating docs for nested compound RDKit::SubstanceGroup::AttachPoint... Generating docs for nested compound RDKit::SubstanceGroup::CState... Generating docs for compound RDKit::SubstructMatchParameters... Generating docs for compound RDKit::MolMatchFinalCheckFunctor... Generating docs for compound RDKit::MolHolderBase... Generating docs for compound RDKit::MolHolder... Generating docs for compound RDKit::CachedMolHolder... Generating docs for compound RDKit::CachedSmilesMolHolder... Generating docs for compound RDKit::CachedTrustedSmilesMolHolder... Generating docs for compound RDKit::FPHolderBase... Generating docs for compound RDKit::PatternHolder... Generating docs for compound RDKit::TautomerPatternHolder... Generating docs for compound RDKit::KeyHolderBase... Generating docs for compound RDKit::KeyFromPropHolder... Generating docs for compound RDKit::SubstructLibrary... Generating docs for compound RDKit::TautomerQuery... Generating docs for compound RDKit::Snapshot... Generating docs for compound RDKit::Trajectory... Generating docs for compound RDKit::DataStructsExplicitBitVecPropHandler... Generating docs for compound RDKit::DiscreteDistMat... Generating docs for compound RDKit::DiscreteValueVect... Generating docs for compound RDKit::FPBReader... Generating docs for compound RDKit::MultiFPBReader... Generating docs for compound RDKit::RealValueVect... Generating docs for compound RDKit::SparseIntVect< IndexType >... Generating docs for compound RDKit::BadFileException... Generating docs for compound RDKit::ControlCCaught... Generating docs for compound RDKit::ControlCHandler... Generating docs for compound RDKit::Dict... Generating docs for nested compound RDKit::Dict::Pair... Generating docs for compound RDKit::PairHolder... Generating docs for compound RDKit::FileParseException... Generating docs for compound RDKit::RDAny... Generating docs for compound RDKit::RDProps... Generating docs for compound RDKit::RDValue... Generating docs for compound RDKit::CustomPropHandler... Generating docs for compound RDKit::ltDouble... Generating docs for compound RDKit::larger_of< T >... Generating docs for compound RDKit::charptr_functor... Generating docs for compound RDKit::ExtendedQueryMol... Generating docs for namespace RDKit::Abbreviations Generating docs for compound RDKit::Abbreviations::AbbreviationDefinition... Generating docs for compound RDKit::Abbreviations::AbbreviationMatch... Generating docs for namespace RDKit::Abbreviations::common_properties Generating docs for namespace RDKit::Abbreviations::Utils Generating docs for namespace RDKit::AtomPair Generating docs for compound RDKit::AtomPair::AtomPairAtomInvGenerator... Generating docs for compound RDKit::AtomPair::AtomPairArguments... Generating docs for compound RDKit::AtomPair::AtomPairAtomEnv< OutputType >... Generating docs for compound RDKit::AtomPair::AtomPairEnvGenerator< OutputType >... Generating docs for namespace RDKit::AtomPairs Generating docs for namespace RDKit::Atropisomers Generating docs for namespace RDKit::Canon Generating docs for compound/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Chirality.h:420: warning: The following parameters of RDKit::Chirality::findMesoCenters(const ROMol &mol, bool includeIsotopes=true, bool includeAtomMaps=false) are not documented: parameter 'includeIsotopes' parameter 'includeAtomMaps' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Chirality.h:143: warning: The following parameter of RDKit::Chirality::findPotentialStereo(ROMol &mol, bool cleanIt, bool flagPossible=true) is not documented: parameter 'flagPossible' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Chirality.h:195: warning: The following parameter of RDKit::Chirality::getTrigonalBipyramidalAxialBond(const Atom *center, int which=0) is not documented: parameter 'center' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/CIPLabeler.h:46: warning: The following parameter of RDKit::CIPLabeler::assignCIPLabels(ROMol &mol, unsigned int maxRecursiveIterations=0) is not documented: parameter 'maxRecursiveIterations' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Lipinski.h:45: warning: argument 'strict' of command @param is not found in the argument list of RDKit::Descriptors::calcNumRotatableBonds(const ROMol &mol, NumRotatableBondsOptions useStrictDefinition=Default) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Lipinski.h:45: warning: The following parameter of RDKit::Descriptors::calcNumRotatableBonds(const ROMol &mol, NumRotatableBondsOptions useStrictDefinition=Default) is not documented: parameter 'useStrictDefinition' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/USRDescriptor.h:68: warning: The following parameter of RDKit::Descriptors::USRCAT(const ROMol &mol, std::vector< double > &descriptor, std::vector< std::vector< unsigned int > > &atomIds, int confId=-1) is not documented: parameter 'atomIds' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/Embedder.h:328: warning: The following parameter of RDKit::DGeomHelpers::EmbedMultipleConfs(ROMol &mol, INT_VECT &res, unsigned int numConfs=10, int numThreads=1, unsigned int maxIterations=30, int seed=-1, bool clearConfs=true, bool useRandomCoords=false, double boxSizeMult=2.0, bool randNegEig=true, unsigned int numZeroFail=1, double pruneRmsThresh=-1.0, const std::map< int, RDGeom::Point3D > *coordMap=nullptr, double optimizerForceTol=1e-3, bool ignoreSmoothingFailures=false, bool enforceChirality=true, bool useExpTorsionAnglePrefs=false, bool useBasicKnowledge=false, bool verbose=false, double basinThresh=5.0, bool onlyHeavyAtomsForRMS=false, unsigned int ETversion=2, bool useSmallRingTorsions=false, bool useMacrocycleTorsions=true, bool useMacrocycle14config=true, unsigned int timeout=0) is not documented: parameter 'timeout' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h:37: warning: The following parameter of RDKit::DGeomHelpers::setTopolBounds(const ROMol &mol, DistGeom::BoundsMatPtr mmat, bool set15bounds=true, bool scaleVDW=false, bool useMacrocycle14config=false, bool forceTransAmides=true) is not documented: parameter 'forceTransAmides' RDKit::Canon::MolStackUnion... Generating docs for compound RDKit::Canon::MolStackElem... Generating docs for compound RDKit::Canon::bondholder... Generating docs for compound RDKit::Canon::canon_atom... Generating docs for compound RDKit::Canon::SpecialChiralityAtomCompareFunctor... Generating docs for compound RDKit::Canon::SpecialSymmetryAtomCompareFunctor... Generating docs for compound RDKit::Canon::AtomCompareFunctor... Generating docs for compound RDKit::Canon::ChiralAtomCompareFunctor... Generating docs for namespace RDKit::Canon::detail Generating docs for namespace RDKit::Chirality Generating docs for compound RDKit::Chirality::StereoInfo... Generating docs for compound RDKit::Chirality::BondWedgingParameters... Generating docs for compound RDKit::Chirality::WedgeInfoBase... Generating docs for compound RDKit::Chirality::WedgeInfoChiral... Generating docs for compound RDKit::Chirality::WedgeInfoAtropisomer... Generating docs for namespace RDKit::Chirality::detail Generating docs for namespace RDKit::CIPLabeler Generating docs for compound RDKit::CIPLabeler::MaxIterationsExceeded... Generating docs for compound RDKit::CIPLabeler::CIPMolSpan< T, U >... Generating docs for nested compound RDKit::CIPLabeler::CIPMolSpan< T, U >::CIPMolIter... Generating docs for compound RDKit::CIPLabeler::CIPMol... Generating docs for compound RDKit::CIPLabeler::AtropisomerBond... Generating docs for compound RDKit::CIPLabeler::Configuration... Generating docs for compound RDKit::CIPLabeler::Sp2Bond... Generating docs for compound RDKit::CIPLabeler::Tetrahedral... Generating docs for compound RDKit::CIPLabeler::Digraph... Generating docs for compound RDKit::CIPLabeler::Edge... Generating docs for compound RDKit::CIPLabeler::Node... Generating docs for compound RDKit::CIPLabeler::Priority... Generating docs for compound RDKit::CIPLabeler::PairList... Generating docs for compound RDKit::CIPLabeler::Rule1a... Generating docs for compound RDKit::CIPLabeler::Rule1b... Generating docs for compound RDKit::CIPLabeler::Rule2... Generating docs for compound RDKit::CIPLabeler::Rule3... Generating docs for compound RDKit::CIPLabeler::Rule4a... Generating docs for compound RDKit::CIPLabeler::Rule4b... Generating docs for compound RDKit::CIPLabeler::Rule4c... Generating docs for compound RDKit::CIPLabeler::Rule5... Generating docs for compound RDKit::CIPLabeler::Rule5New... Generating docs for compound RDKit::CIPLabeler::Rule6... Generating docs for compound RDKit::CIPLabeler::Rules... Generating docs for compound RDKit::CIPLabeler::SequenceRule... Generating docs for compound RDKit::CIPLabeler::Sort... Generating docs for compound RDKit::CIPLabeler::TooManyNodesException... Generating docs for namespace RDKit::CIPLabeler_detail Generating docs for namespace RDKit::common_properties Generating docs for namespace RDKit::constants Generating docs for namespace RDKit::Deprotect Generating docs for compound RDKit::Deprotect::DeprotectData... Generating docs for namespace RDKit::Descriptors Generating docs for compound RDKit::Descriptors::CrippenParams... Generating docs for compound RDKit::Descriptors::CrippenParamCollection... Generating docs for compound RDKit::Descriptors::DoubleCubicLatticeVolume... Generating docs for compound RDKit::Descriptors::PropertyFunctor... Generating docs for compound RDKit::Descriptors::Properties... Generating docs for namespace RDKit::Descriptors::detail Generating docs for namespace RDKit::detail Generating docs for compound RDKit::detail::MCSParametersInternal... Generating docs for namespace RDKit::details Generating docs for namespace RDKit::DGeomHelpers Generating docs for compound RDKit::DGeomHelpers::EmbedParameters... Generating docs for namespace RDKit::DTags Generating docs for namespace RDKit::EnumerateStereoisomers Generating docs for compound RDKit::EnumerateStereoisomers::StereoEnumerationOptions... Generating docs for compound RDKit::EnumerateStereoisomers::StereoisomerEnumerator... Generating docs for namespace RDKit::EnumerateStereoisomers::details Generating docs for compound RDKit::EnumerateStere/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatchers.h:98: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::And::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 98 in file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: The following parameter of RDKit::FilterMatchOps::And::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatchers.h:161: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::Or::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 98 in file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: The following parameter of RDKit::FilterMatchOps::Or::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatchers.h:218: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::Not::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 98 in file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: The following parameter of RDKit::FilterMatchOps::Not::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MHFP.h:93: warning: The following parameter of RDKit::MHFPFingerprints::MHFPEncoder::CreateShingling(const ROMol &mol, unsigned char radius=3, bool rings=true, bool isomeric=false, bool kekulize=false, unsigned char min_radius=1) is not documented: parameter 'mol' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MHFP.h:132: warning: The following parameter of RDKit::MHFPFingerprints::MHFPEncoder::Encode(ROMol &mol, unsigned char radius=3, bool rings=true, bool isomeric=false, bool kekulize=false, unsigned char min_radius=1) is not documented: parameter 'mol' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MHFP.h:183: warning: The following parameter of RDKit::MHFPFingerprints::MHFPEncoder::EncodeSECFP(ROMol &mol, unsigned char radius=3, bool rings=true, bool isomeric=false, bool kekulize=false, unsigned char min_radius=1, size_t length=2048) is not documented: parameter 'mol' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/MMPA.h:28: warning: The following parameter of RDKit::MMPA::fragmentMol(const ROMol &mol, std::vector< std::pair< ROMOL_SPTR, ROMOL_SPTR > > &result, unsigned int maxCuts=3, unsigned int maxCutBonds=20, const std::string &pattern="[#6+0;!$(*=,#[!#6])]!@!=!#[*]") is not documented: parameter 'pattern' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/MMPA.h:49: warning: The following parameter of RDKit::MMPA::fragmentMol(const ROMol &mol, std::vector< std::pair< ROMOL_SPTR, ROMOL_SPTR > > &result, unsigned int minCuts, unsigned int maxCuts, unsigned int maxCutBonds, const std::string &pattern="[#6+0;!$(*=,#[!#6])]!@!=!#[*]") is not documented: parameter 'pattern' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/AlignMolecules.h:149: warning: argument 'trans' of command @param is not found in the argument list of RDKit::MolAlign::getBestRMS(ROMol &prbMol, const ROMol &refMol, int prbCid=-1, int refCid=-1, const std::vector< MatchVectType > &map=std::vector< MatchVectType >(), int maxMatches=1e6, bool symmetrizeConjugatedTerminalGroups=true, const RDNumeric::DoubleVector *weights=nullptr, int numThreads=1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMol.h:45: warning: argument 'highlightRadii' of command @param is not found in the argument list of RDKit::MolDraw2D_detail::DrawMol::DrawMol(const ROMol &mol, const std::string &legend, int width, int height, const MolDrawOptions &drawOptions, DrawText &textDrawer, const std::vector< int > *highlightAtoms=nullptr, const std::vector< int > *highlightBonds=nullptr, const std::map< int, DrawColour > *highlightAtomMap=nullptr, const std::map< int, DrawColour > *highlightBondMap=nullptr, const std::vector< std::pair< DrawColour, DrawColour > > *bondColours=nullptr, const std::map< int, double > *highlight_radii=nullptr, bool includeAnnotations=true, int confId=-1, bool isReactionMol=false) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMol.h:45: warning: The following parameters of RDKit::MolDraw2D_detail::DrawMol::DrawMol(const ROMol &mol, const std::string &legend, int width, int height, const MolDrawOptions &drawOptions, DrawText &textDrawer, const std::vector< int > *highlightAtoms=nullptr, const std::vector< int > *highlightBonds=nullptr, const std::map< int, DrawColour > *highlightAtomMap=nullptr, const std::map< int, DrawColour > *highlightBondMap=nullptr, const std::vector< std::pair< DrawColour, DrawColour > > *bondColours=nullptr, const std::map< int, double > *highlight_radii=nullptr, bool includeAnnotations=true, int confId=-1, bool isReactionMol=false) are not documented: parameter 'bondColours' parameter 'highlight_radii' parameter 'includeAnnotations' parameter 'isReactionMol' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCH.h:28: warning: argument 'highlightRadii' of command @param is not found in the argument list of RDKit::MolDraw2D_detail::DrawMolMCH::DrawMolMCH(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCH.h:28: warning: The following parameter of RDKit::MolDraw2D_detail::DrawMolMCH::DrawMolMCH(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) is not documented: parameter 'highlight_radii' oisomers::details::Flipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::AtomFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::BondFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::StereoGroupFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::AtropisomerFlipper... Generating docs for namespace RDKit::EnumerationStrategyPickler Generating docs for namespace RDKit::EnumerationTypes Generating docs for namespace RDKit::FileParsers Generating docs for namespace RDKit::FileParsers::schrodinger Generating docs for namespace RDKit::FileParserUtils Generating docs for namespace RDKit::FilterMatchOps Generating docs for compound RDKit::FilterMatchOps::And... Generating docs for compound RDKit::FilterMatchOps::Or... Generating docs for compound RDKit::FilterMatchOps::Not... Generating docs for namespace RDKit::FMCS Generating docs for compound RDKit::FMCS::Composition2N... Generating docs for compound RDKit::FMCS::ExecStatistics... Generating docs for compound RDKit::FMCS::DuplicatedSeedCache... Generating docs for nested compound RDKit::FMCS::DuplicatedSeedCache::TKey... Generating docs for compound RDKit::FMCS::Graph... Generating docs for compound RDKit::FMCS::TArray2D< T >... Generating docs for compound RDKit::FMCS::MaximumCommonSubgraph... Generating docs for compound RDKit::FMCS::MolFragment... Generating docs for compound RDKit::FMCS::NewBond... Generating docs for compound RDKit::FMCS::Seed... Generating docs for compound RDKit::FMCS::SeedSet... Generating docs for compound RDKit::FMCS::SubstructureCache... Generating docs for nested compound RDKit::FMCS::SubstructureCache::KeyNumericMetrics... Generating docs for nested compound RDKit::FMCS::SubstructureCache::HashKey... Generating docs for compound RDKit::FMCS::Target... Generating docs for compound RDKit::FMCS::TargetMatch... Generating docs for namespace RDKit::ForceFieldsHelper Generating docs for namespace RDKit::ForceFieldsHelper::detail Generating docs for namespace RDKit::GeneralizedSubstruct Generating docs for compound RDKit::GeneralizedSubstruct::ExtendedQueryMol... Generating docs for namespace RDKit::GeneralMolSupplier Generating docs for compound RDKit::GeneralMolSupplier::SupplierOptions... Generating docs for namespace RDKit::GenericGroups Generating docs for namespace RDKit::GenericGroups::Matchers Generating docs for namespace RDKit::Local Generating docs for namespace RDKit::MACCSFingerprints Generating docs for namespace RDKit::MHFPFingerprints Generating docs for compound RDKit::MHFPFingerprints::MHFPEncoder... Generating docs for namespace RDKit::MHFPFingerprints::FNV Generating docs for namespace RDKit::MMFF Generating docs for compound RDKit::MMFF::MMFFAtomProperties... Generating docs for compound RDKit::MMFF::MMFFMolProperties... Generating docs for namespace RDKit::MMFF::DefaultParameters Generating docs for namespace RDKit::MMFF::Tools Generating docs for compound RDKit::MMFF::Tools::DefaultTorsionBondSmarts... Generating docs for namespace RDKit::MMPA Generating docs for namespace RDKit::MMPA::detail Generating docs for namespace RDKit::MolAlign Generating docs for compound RDKit::MolAlign::MolAlignException... Generating docs for compound RDKit::MolAlign::O3AFuncData... Generating docs for compound RDKit::MolAlign::O3AConstraint... Generating docs for compound RDKit::MolAlign::O3AConstraintVect... Generating docs for compound RDKit::MolAlign::MolHistogram... Generating docs for compound RDKit::MolAlign::LAP... Generating docs for compound RDKit::MolAlign::SDM... Generating docs for compound RDKit::MolAlign::O3A... Generating docs for namespace RDKit::MolAlign::details Generating docs for namespace RDKit::MolDraw2D_detail Generating docs for compound RDKit::MolDraw2D_detail::AtomSymbol... Generating docs for compound RDKit::MolDraw2D_detail::DrawAnnotation... Generating docs for compound RDKit::MolDraw2D_detail::DrawMol... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCH... Generating docs for compound RDKit::MolD/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h:24: warning: argument 'highlightRadii' of command @param is not found in the argument list of RDKit::MolDraw2D_detail::DrawMolMCHCircleAndLine::DrawMolMCHCircleAndLine(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h:24: warning: The following parameter of RDKit::MolDraw2D_detail::DrawMolMCHCircleAndLine::DrawMolMCHCircleAndLine(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) is not documented: parameter 'highlight_radii' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h:36: warning: argument 'highlightRadii' of command @param is not found in the argument list of RDKit::MolDraw2D_detail::DrawMolMCHLasso::DrawMolMCHLasso(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h:36: warning: The following parameter of RDKit::MolDraw2D_detail::DrawMolMCHLasso::DrawMolMCHLasso(const ROMol &mol, const std::string &legend, int width, int height, MolDrawOptions &drawOptions, DrawText &textDrawer, const std::map< int, std::vector< DrawColour > > &highlight_atom_map, const std::map< int, std::vector< DrawColour > > &highlight_bond_map, const std::map< int, double > &highlight_radii, const std::map< int, int > &highlight_linewidth_multipliers, int confId=-1) is not documented: parameter 'highlight_radii' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:263: warning: The following parameter of RDKit::MolEnumerator::enumerate(const ROMol &mol, size_t maxPerOperation=0) is not documented: parameter 'mol' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/MolInterchange.h:81: warning: The following parameter of RDKit::MolInterchange::MolsToJSONData(const std::vector< T > &mols, const JSONWriteParameters ¶ms=defaultJSONWriteParameters) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/MolInterchange.h:90: warning: The following parameter of RDKit::MolInterchange::MolToJSONData(const T &mol, const JSONWriteParameters ¶ms=defaultJSONWriteParameters) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:789: warning: The following parameter of RDKit::MolOps::findSSSR(const ROMol &mol, std::vector< std::vector< int > > &res, bool includeDativeBonds=false, bool includeHydrogenBonds=false) is not documented: parameter 'includeHydrogenBonds' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:362: warning: The following parameters of RDKit::MolOps::mergeQueryHs(const ROMol &mol, bool mergeUnmappedOnly=false, bool mergeIsotopes=false) are not documented: parameter 'mergeUnmappedOnly' parameter 'mergeIsotopes' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:855: warning: The following parameter of RDKit::MolOps::symmetrizeSSSR(ROMol &mol, std::vector< std::vector< int > > &res, bool includeDativeBonds=false, bool includeHydrogenBonds=false) is not documented: parameter 'includeHydrogenBonds' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:1332: warning: argument 'addAsQueries' of command @param is not found in the argument list of RDKit::MolOps::details::addExplicitAttachmentPoint(RWMol &mol, unsigned int atomIdx, unsigned int val, bool addAsQuery=true, bool addCoords=true) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:1332: warning: The following parameter of RDKit::MolOps::details::addExplicitAttachmentPoint(RWMol &mol, unsigned int atomIdx, unsigned int val, bool addAsQuery=true, bool addCoords=true) is not documented: parameter 'addAsQuery' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:1349: warning: argument 'mol' of command @param is not found in the argument list of RDKit::MolOps::details::isAttachmentPoint(const Atom *atom, bool markedOnly=true) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.h:1349: warning: The following parameter of RDKit::MolOps::details::isAttachmentPoint(const Atom *atom, bool markedOnly=true) is not documented: parameter 'atom' raw2D_detail::DrawMolMCHCircleAndLine... Generating docs for compound RDKit::MolDraw2D_detail::LinePair... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCHLasso... Generating docs for compound RDKit::MolDraw2D_detail::DrawShape... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeArrow... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeEllipse... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeSimpleLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapePolyLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeSolidWedge... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeDashedWedge... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeWavyLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeArc... Generating docs for compound RDKit::MolDraw2D_detail::DrawText... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextCairo... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFT... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTCairo... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTJS... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTSVG... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextJS... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextNotFT... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextSVG... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTQt... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextQt... Generating docs for compound RDKit::MolDraw2D_detail::StringRect... Generating docs for namespace RDKit::MolDraw2DUtils Generating docs for compound RDKit::MolDraw2DUtils::ContourParams... Generating docs for namespace RDKit::MolEnumerator Generating docs for compound RDKit::MolEnumerator::LinkNode... Generating docs for compound RDKit::MolEnumerator::MolEnumeratorOp... Generating docs for compound RDKit::MolEnumerator::PositionVariationOp... Generating docs for compound RDKit::MolEnumerator::LinkNodeOp... Generating docs for compound RDKit::MolEnumerator::RepeatUnitOp... Generating docs for compound RDKit::MolEnumerator::MolEnumeratorParams... Generating docs for namespace RDKit::MolEnumerator::detail Generating docs for namespace RDKit::MolEnumerator::utils Generating docs for namespace RDKit::MolFragmenter Generating docs for compound RDKit::MolFragmenter::FragmenterBondType... Generating docs for namespace RDKit::MolHash Generating docs for namespace RDKit::MolInterchange Generating docs for compound RDKit::MolInterchange::JSONParseParameters... Generating docs for compound RDKit::MolInterchange::JSONWriteParameters... Generating docs for namespace RDKit::MolOps Generating docs for compound RDKit::MolOps::AddHsParameters... Generating docs for compound RDKit::MolOps::RemoveHsParameters... Generating docs for compound RDKit::MolOps::AdjustQueryParameters... Generating docs for compound RDKit::MolOps::Hybridizations... Generating docs for namespace RDKit::MolOps::details Generating docs for namespace RDKit::MolProcessing Generating docs for namespace RDKit::MolProcessing::details Generating docs for namespace RDKit::MolShapes Generating docs for namespace RDKit::MolStandardize Generating docs for compound RDKit::MolStandardize::AcidBaseCatalogEntry... Generating docs for compound RDKit::MolStandardize::AcidBaseCatalogParams... Generating docs for compound RDKit::MolStandardize::ChargeCorrection... Generating docs for compound RDKit::MolStandardize::Reionizer... Generating docs for compound RDKit::MolStandardize::Uncharger... Generating docs for compound RDKit::MolStandardize::FragmentRemover... Generating docs for compound RDKit::MolStandardize::LargestFragmentChooser... Generating docs for nested compound RDKit::MolStandardize::LargestFragmentChooser::Largest... Generating docs for compound RDKit::MolStandardize::FragmentCatalogEntry... Generating docs for compound RDKit::MolStandardize::FragmentCatalogParams... Generating docs for compoun/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.h:208: warning: argument countSimulation from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.h:208: warning: argument includeChirality from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.h:208: warning: argument onlyNonzeroInvariants from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.h:273: warning: argument countSimulation from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.h:273: warning: argument includeChirality from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganGenerator.h:273: warning: argument onlyNonzeroInvariants from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::MorganFingerprint::MorganAtomEnv::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, const bool hashResults=false, const std::uint64_t fpSize=0) const are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MorganFingerprints.h:117: warning: The following parameter of RDKit::MorganFingerprints::getHashedFingerprint(const ROMol &mol, unsigned int radius, unsigned int nBits=2048, std::vector< boost::uint32_t > *invariants=nullptr, const std::vector< boost::uint32_t > *fromAtoms=nullptr, bool useChirality=false, bool useBondTypes=true, bool onlyNonzeroInvariants=false, BitInfoMap *atomsSettingBits=nullptr, bool includeRedundantEnvironments=false) is not documented: parameter 'nBits' d RDKit::MolStandardize::MetalDisconnectorOptions... Generating docs for compound RDKit::MolStandardize::MetalDisconnector... Generating docs for compound RDKit::MolStandardize::CleanupParameters... Generating docs for compound RDKit::MolStandardize::Normalizer... Generating docs for compound RDKit::MolStandardize::PipelineOptions... Generating docs for compound RDKit::MolStandardize::PipelineLogEntry... Generating docs for compound RDKit::MolStandardize::PipelineResult... Generating docs for compound RDKit::MolStandardize::Pipeline... Generating docs for compound RDKit::MolStandardize::Tautomer... Generating docs for compound RDKit::MolStandardize::TautomerEnumeratorResult... Generating docs for nested compound RDKit::MolStandardize::TautomerEnumeratorResult::const_iterator... Generating docs for compound RDKit::MolStandardize::TautomerEnumeratorCallback... Generating docs for compound RDKit::MolStandardize::TautomerEnumerator... Generating docs for compound RDKit::MolStandardize::TautomerCatalogEntry... Generating docs for compound RDKit::MolStandardize::TautomerTransform... Generating docs for compound RDKit::MolStandardize::TautomerCatalogParams... Generating docs for compound RDKit::MolStandardize::TransformCatalogEntry... Generating docs for compound RDKit::MolStandardize::TransformCatalogParams... Generating docs for compound RDKit::MolStandardize::ValidationMethod... Generating docs for compound RDKit::MolStandardize::CompositeValidation... Generating docs for compound RDKit::MolStandardize::RDKitValidation... Generating docs for compound RDKit::MolStandardize::NoAtomValidation... Generating docs for compound RDKit::MolStandardize::FragmentValidation... Generating docs for compound RDKit::MolStandardize::NeutralValidation... Generating docs for compound RDKit::MolStandardize::IsotopeValidation... Generating docs for compound RDKit::MolStandardize::MolVSValidation... Generating docs for compound RDKit::MolStandardize::AllowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::DisallowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::DisallowedRadicalValidation... Generating docs for compound RDKit::MolStandardize::FeaturesValidation... Generating docs for compound RDKit::MolStandardize::Is2DValidation... Generating docs for compound RDKit::MolStandardize::Layout2DValidation... Generating docs for compound RDKit::MolStandardize::StereoValidation... Generating docs for namespace RDKit::MolStandardize::defaults Generating docs for namespace RDKit::MolStandardize::Operations Generating docs for namespace RDKit::MolStandardize::TautomerScoringFunctions Generating docs for compound RDKit::MolStandardize::TautomerScoringFunctions::SubstructTerm... Generating docs for namespace RDKit::MorganFingerprint Generating docs for compound RDKit::MorganFingerprint::MorganAtomInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganFeatureAtomInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganBondInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganArguments... Generating docs for compound RDKit::MorganFingerprint::MorganAtomEnv< OutputType >... Generating docs for compound RDKit::MorganFingerprint::MorganEnvGenerator< OutputType >... Generating docs for namespace RDKit::MorganFingerprints Generating docs for compound RDKit::MorganFingerprints::ss_matcher... Generating docs for namespace RDKit::PicklerOps Generating docs for namespace RDKit::PNGData Generating docs for namespace RDKit::QueryOps Generating docs for namespace RDKit::RascalMCES Generating docs for compound RDKit::RascalMCES::PartitionSet... Generating docs for compound RDKit::RascalMCES::RascalClusterOptions... Generating docs for compound RDKit::RascalMCES::RascalOptions... Generating docs for compound RDKit::RascalMCES::RascalResult... Generating docs for namespace RDKit::RascalMCES::details Generating docs for compound RDKit::RascalMCES::details::ClusNode... Generating docs for namespace RDKit::RDKitFP Generating docs for compound RDKit::RDKitFP::RDKitFPA/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::RDKitFP::RDKitFPAtomEnv::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, bool hashResults=false, const std::uint64_t fpSize=0) const are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs/ReducedGraphs.h:26: warning: The following parameter of RDKit::ReducedGraphs::generateMolExtendedReducedGraph(const ROMol &mol, std::vector< boost::dynamic_bitset<> > *atomTypes=nullptr) is not documented: parameter 'atomTypes' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/SanitizeRxn.h:129: warning: argument 'operationThatFailed' of command @param is not found in the argument list of RDKit::RxnOps::sanitizeRxn(ChemicalReaction &rxn, unsigned int &operationsThatFailed, unsigned int sanitizeOps=SANITIZE_ALL, const MolOps::AdjustQueryParameters ¶ms=DefaultRxnAdjustParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/SanitizeRxn.h:129: warning: The following parameters of RDKit::RxnOps::sanitizeRxn(ChemicalReaction &rxn, unsigned int &operationsThatFailed, unsigned int sanitizeOps=SANITIZE_ALL, const MolOps::AdjustQueryParameters ¶ms=DefaultRxnAdjustParams()) are not documented: parameter 'operationsThatFailed' parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesWrite.h:98: warning: argument 'bondIn' of command @param is not found in the argument list of RDKit::SmilesWrite::GetAtomSmiles(const Atom *atom, bool doKekule=false, const Bond *=nullptr, bool allHsExplicit=false, bool isomericSmiles=true) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h:246: warning: The following parameter of RDKit::SynthonSpaceSearch::SynthonSpace::readTextFile(const std::string &inFilename, bool &cancelled) is not documented: parameter 'cancelled' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h:198: warning: The following parameter of RDKit::SynthonSpaceSearch::SynthonSpace::substructureSearch(const GeneralizedSubstruct::ExtendedQueryMol &query, const SubstructMatchParameters &matchParams=SubstructMatchParameters(), const SynthonSpaceSearchParams ¶ms=SynthonSpaceSearchParams()) is not documented: parameter 'matchParams' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h:184: warning: The following parameter of RDKit::SynthonSpaceSearch::SynthonSpace::substructureSearch(const ROMol &query, const SubstructMatchParameters &matchParams=SubstructMatchParameters(), const SynthonSpaceSearchParams ¶ms=SynthonSpaceSearchParams()) is not documented: parameter 'matchParams' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:94: warning: argument 'useCountSimulation' of command @param is not found in the argument list of RDKit::TopologicalTorsion::getTopologicalTorsionGenerator(bool includeChirality=false, uint32_t torsionAtomCount=4, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, bool countSimulation=true, std::uint32_t fpSize=2048, std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, bool ownsAtomInvGen=false) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:94: warning: The following parameter of RDKit::TopologicalTorsion::getTopologicalTorsionGenerator(bool includeChirality=false, uint32_t torsionAtomCount=4, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, bool countSimulation=true, std::uint32_t fpSize=2048, std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, bool ownsAtomInvGen=false) is not documented: parameter 'countSimulation' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:32: warning: argument 'useCountSimulation' of command @param is not found in the argument list of RDKit::TopologicalTorsion::TopologicalTorsionArguments::TopologicalTorsionArguments(const bool includeChirality=false, const uint32_t torsionAtomCount=4, const bool countSimulation=true, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const std::uint32_t fpSize=2048) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:32: warning: The following parameter of RDKit::TopologicalTorsion::TopologicalTorsionArguments::TopologicalTorsionArguments(const bool includeChirality=false, const uint32_t torsionAtomCount=4, const bool countSimulation=true, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const std::uint32_t fpSize=2048) is not documented: parameter 'countSimulation' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:68: warning: The following parameter of RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv::TopologicalTorsionAtomEnv(OutputType bitId, INT_VECT atomPath) is not documented: parameter 'atomPath' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/FingerprintGenerator.h:123: warning: The following parameters of RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv::getBitId(FingerprintArguments *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, AdditionalOutput *AdditionalOutput, const bool hashResults=false, const std::uint64_t fpSize=0) const are not documented: parameter 'AdditionalOutput' parameter 'fpSize' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/CDXMLParser.h:122: warning: argument 'fileName' of command @param is not found in the argument list of RDKit::v1::CDXMLFileToMols(const std::string &filename, bool sanitize=true, bool removeHs=true) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/CDXMLParser.h:122: warning: The following parameter of RDKit::v1::CDXMLFileToMols(const std::string &filename, bool sanitize=true, bool removeHs=true) is not documented: parameter 'filename' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/FileParsers.h:121: warning: argument line from the argument list of RDKit::v1::MolDataStreamToMol has multiple @param documentation sections rguments... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomInvGenerator... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomEnv< OutputType >... Generating docs for compound RDKit::RDKitFP::RDKitFPEnvGenerator< OutputType >... Generating docs for namespace RDKit::RDKitFPUtils Generating docs for namespace RDKit::RDTypeTag Generating docs for namespace RDKit::RDTypeTag::detail Generating docs for compound RDKit::RDTypeTag::detail::Value... Generating docs for namespace RDKit::ReactionRunnerUtils Generating docs for namespace RDKit::ReducedGraphs Generating docs for namespace RDKit::RxnOps Generating docs for namespace RDKit::ScaffoldNetwork Generating docs for compound RDKit::ScaffoldNetwork::ScaffoldNetworkParams... Generating docs for compound RDKit::ScaffoldNetwork::NetworkEdge... Generating docs for compound RDKit::ScaffoldNetwork::ScaffoldNetwork... Generating docs for namespace RDKit::ScaffoldNetwork::detail Generating docs for namespace RDKit::SGroupParsing Generating docs for namespace RDKit::SGroupWriting Generating docs for namespace RDKit::SLNParse Generating docs for compound RDKit::SLNParse::AttribType... Generating docs for namespace RDKit::SmartsWrite Generating docs for namespace RDKit::SmilesParse Generating docs for compound RDKit::SmilesParse::SmilesParseException... Generating docs for namespace RDKit::SmilesWrite Generating docs for namespace RDKit::SmilesWrite::detail Generating docs for namespace RDKit::StructureCheck Generating docs for compound RDKit::StructureCheck::ChargeFix... Generating docs for compound RDKit::StructureCheck::Ligand... Generating docs for compound RDKit::StructureCheck::AugmentedAtom... Generating docs for compound RDKit::StructureCheck::IncEntry... Generating docs for compound RDKit::StructureCheck::PathEntry... Generating docs for compound RDKit::StructureCheck::StructCheckerOptions... Generating docs for compound RDKit::StructureCheck::StructChecker... Generating docs for compound RDKit::StructureCheck::StructCheckTautomer... Generating docs for compound RDKit::StructureCheck::Neighbourhood... Generating docs for namespace RDKit::Subgraphs Generating docs for namespace RDKit::SubstanceGroupChecks Generating docs for namespace RDKit::SynthonSpaceSearch Generating docs for compound RDKit::SynthonSpaceSearch::SearchResults... Generating docs for compound RDKit::SynthonSpaceSearch::Synthon... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSet... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceSearchParams... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpace... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceFingerprintSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceHitSet... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceFPHitSet... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceRascalSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceSubstructureSearcher... Generating docs for namespace RDKit::SynthonSpaceSearch::details Generating docs for compound RDKit::SynthonSpaceSearch::details::MemoryMappedFileReader... Generating docs for compound RDKit::SynthonSpaceSearch::details::Stepper... Generating docs for namespace RDKit::TopologicalTorsion Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionArguments... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv< OutputType >... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionEnvGenerator< OutputType >... Generating docs for namespace RDKit::UFF Generating docs for namespace RDKit::UFF::Tools Generating docs for compound RDKit::UFF::Tools::DefaultTorsionBondSmarts... Generating docs for namespace RDKit::Utils Generating docs for compound RDKit::Utils::LocaleSwitcher... Generating docs for namespace RDKit::Utils::detail Generating docs for namespace RDKit::v1 Generating docs for compound R/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/CDXMLParser.h:66: warning: argument 'fileName' of command @param is not found in the argument list of RDKit::v2::CDXMLParser::MolsFromCDXMLFile(const std::string &filename, const CDXMLParserParams ¶ms=CDXMLParserParams(true, true, CDXMLFormat::Auto)) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/CDXMLParser.h:66: warning: The following parameter of RDKit::v2::CDXMLParser::MolsFromCDXMLFile(const std::string &filename, const CDXMLParserParams ¶ms=CDXMLParserParams(true, true, CDXMLFormat::Auto)) is not documented: parameter 'filename' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:176: warning: argument 'sanitize' of command @param is not found in the argument list of RDKit::v2::FileParsers::SDMolSupplier::SDMolSupplier(const std::string &fileName, const MolFileParserParams ¶ms=MolFileParserParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:176: warning: argument 'removeHs' of command @param is not found in the argument list of RDKit::v2::FileParsers::SDMolSupplier::SDMolSupplier(const std::string &fileName, const MolFileParserParams ¶ms=MolFileParserParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:176: warning: argument 'strictParsing' of command @param is not found in the argument list of RDKit::v2::FileParsers::SDMolSupplier::SDMolSupplier(const std::string &fileName, const MolFileParserParams ¶ms=MolFileParserParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:176: warning: The following parameter of RDKit::v2::FileParsers::SDMolSupplier::SDMolSupplier(const std::string &fileName, const MolFileParserParams ¶ms=MolFileParserParams()) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:261: warning: argument 'delimiter' of command @param is not found in the argument list of RDKit::v2::FileParsers::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName, const SmilesMolSupplierParams ¶ms=SmilesMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:261: warning: argument 'smilesColumn' of command @param is not found in the argument list of RDKit::v2::FileParsers::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName, const SmilesMolSupplierParams ¶ms=SmilesMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:261: warning: argument 'nameColumn' of command @param is not found in the argument list of RDKit::v2::FileParsers::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName, const SmilesMolSupplierParams ¶ms=SmilesMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:261: warning: argument 'titleLine' of command @param is not found in the argument list of RDKit::v2::FileParsers::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName, const SmilesMolSupplierParams ¶ms=SmilesMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:261: warning: argument 'sanitize' of command @param is not found in the argument list of RDKit::v2::FileParsers::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName, const SmilesMolSupplierParams ¶ms=SmilesMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:261: warning: The following parameter of RDKit::v2::FileParsers::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName, const SmilesMolSupplierParams ¶ms=SmilesMolSupplierParams()) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:353: warning: argument 'nameRecord' of command @param is not found in the argument list of RDKit::v2::FileParsers::TDTMolSupplier::TDTMolSupplier(const std::string &fileName, const TDTMolSupplierParams ¶ms=TDTMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:353: warning: argument 'confId2D' of command @param is not found in the argument list of RDKit::v2::FileParsers::TDTMolSupplier::TDTMolSupplier(const std::string &fileName, const TDTMolSupplierParams ¶ms=TDTMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:353: warning: argument 'confId3D' of command @param is not found in the argument list of RDKit::v2::FileParsers::TDTMolSupplier::TDTMolSupplier(const std::string &fileName, const TDTMolSupplierParams ¶ms=TDTMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:353: warning: argument 'sanitize' of command @param is not found in the argument list of RDKit::v2::FileParsers::TDTMolSupplier::TDTMolSupplier(const std::string &fileName, const TDTMolSupplierParams ¶ms=TDTMolSupplierParams()) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/MolSupplier.h:353: warning: The following parameter of RDKit::v2::FileParsers::TDTMolSupplier::TDTMolSupplier(const std::string &fileName, const TDTMolSupplierParams ¶ms=TDTMolSupplierParams()) is not documented: parameter 'params' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/MIFDescriptors.h:117: warning: argument 'pos' of command @param is not found in the argument list of RDMIF::Coulomb::Coulomb(const std::vector< double > &charges, const std::vector< RDGeom::Point3D > &positions, double probeCharge=1.0, bool absVal=false, double alpha=0.0, double cutoff=1.0) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/MIFDescriptors.h:117: warning: The following parameter of RDMIF::Coulomb::Coulomb(const std::vector< double > &charges, const std::vector< RDGeom::Point3D > &positions, double probeCharge=1.0, bool absVal=false, double alpha=0.0, double cutoff=1.0) is not documented: parameter 'positions' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/MIFDescriptors.h:220: warning: argument 'pos' of command @param is not found in the argument list of RDMIF::CoulombDielectric::CoulombDielectric(const std::vector< double > &charges, const std::vector< RDGeom::Point3D > &positions, double probeCharge=1.0, bool absVal=false, double alpha=0.0, double cutoff=1.0, double epsilon=80.0, double xi=4.0) /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/MIFDescriptors.h:220: warning: The following parameter of RDMIF::CoulombDielectric::CoulombDielectric(const std::vector< double > &charges, const std::vector< RDGeom::Point3D > &positions, double probeCharge=1.0, bool absVal=false, double alpha=0.0, double cutoff=1.0, double epsilon=80.0, double xi=4.0) is not documented: parameter 'positions' /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/HierarchicalClusterPicker.h:48: warning: The following parameter of RDPickers::HierarchicalClusterPicker::pick(const double *distMat, unsigned int poolSize, unsigned int pickSize) const is not documented: parameter 'distMat' /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/LeaderPicker.h:48: warning: argument 'firstPicks' of command @param is not found in the argument list of RDPickers::LeaderPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/LeaderPicker.h:48: warning: argument 'seed' of command @param is not found in the argument list of RDPickers::LeaderPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/LeaderPicker.h:87: warning: The following parameters of RDPickers::LeaderPicker::pick(const double *distMat, unsigned int poolSize, unsigned int pickSize, const RDKit::INT_VECT &firstPicks, double threshold, int nthreads) const are not documented: parameter 'threshold' parameter 'nthreads' /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/MaxMinPicker.h:44: warning: argument 'firstPicks' of command @param is not found in the argument list of RDPickers::MaxMinPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/MaxMinPicker.h:44: warning: argument 'seed' of command @param is not found in the argument list of RDPickers::MaxMinPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const DKit::v1::MolSupplier... Generating docs for compound RDKit::v1::ForwardSDMolSupplier... Generating docs for compound RDKit::v1::SDMolSupplier... Generating docs for compound RDKit::v1::SmilesMolSupplier... Generating docs for compound RDKit::v1::TDTMolSupplier... Generating docs for compound RDKit::v1::SmilesParserParams... Generating docs for compound RDKit::v1::SmartsParserParams... Generating docs for compound RDKit::v1::MolFileUnhandledFeatureException... Generating docs for compound RDKit::v1::PDBParserParams... Generating docs for compound RDKit::v1::SmilesParseException... Generating docs for namespace RDKit::v2 Generating docs for namespace RDKit::v2::CDXMLParser Generating docs for compound RDKit::v2::CDXMLParser::CDXMLParserParams... Generating docs for namespace RDKit::v2::FileParsers Generating docs for compound RDKit::v2::FileParsers::MolFileUnhandledFeatureException... Generating docs for compound RDKit::v2::FileParsers::MolFileParserParams... Generating docs for compound RDKit::v2::FileParsers::MolFromSCSRParams... Generating docs for compound RDKit::v2::FileParsers::TPLParserParams... Generating docs for compound RDKit::v2::FileParsers::Mol2ParserParams... Generating docs for compound RDKit::v2::FileParsers::PDBParserParams... Generating docs for compound RDKit::v2::FileParsers::MolSupplier... Generating docs for compound RDKit::v2::FileParsers::ForwardSDMolSupplier... Generating docs for compound RDKit::v2::FileParsers::SDMolSupplier... Generating docs for compound RDKit::v2::FileParsers::SmilesMolSupplierParams... Generating docs for compound RDKit::v2::FileParsers::SmilesMolSupplier... Generating docs for compound RDKit::v2::FileParsers::TDTMolSupplierParams... Generating docs for compound RDKit::v2::FileParsers::TDTMolSupplier... Generating docs for namespace RDKit::v2::MarvinParser Generating docs for compound RDKit::v2::MarvinParser::MrvParserParams... Generating docs for namespace RDKit::v2::ReactionParser Generating docs for compound RDKit::v2::ReactionParser::ReactionSmartsParserParams... Generating docs for namespace RDKit::v2::SmilesParse Generating docs for compound RDKit::v2::SmilesParse::SmilesParserParams... Generating docs for compound RDKit::v2::SmilesParse::SmartsParserParams... Generating docs for compound RDKit::v2::SmilesParse::SmilesParseException... Generating docs for namespace RDLog Generating docs for compound RDLog::LogStateSetter... Generating docs for namespace RDMIF Generating docs for compound RDMIF::Coulomb... Generating docs for compound RDMIF::CoulombDielectric... Generating docs for compound RDMIF::VdWaals... Generating docs for compound RDMIF::MMFFVdWaals... Generating docs for compound RDMIF::UFFVdWaals... Generating docs for compound RDMIF::HBond... Generating docs for compound RDMIF::Hydrophilic... Generating docs for namespace RDNumeric Generating docs for compound RDNumeric::Matrix< TYPE >... Generating docs for compound RDNumeric::SquareMatrix< TYPE >... Generating docs for compound RDNumeric::SymmMatrix< TYPE >... Generating docs for compound RDNumeric::Vector< TYPE >... Generating docs for namespace RDNumeric::Alignments Generating docs for namespace RDNumeric::EigenSolvers Generating docs for namespace RDPickers Generating docs for compound RDPickers::DistPicker... Generating docs for compound RDPickers::HierarchicalClusterPicker... Generating docs for compound RDPickers::LeaderPicker... Generating docs for compound RDPickers::LeaderPickerState< T >... Generating docs for compound RDPickers::MaxMinPicker... Generating docs for compound RDPickers::MaxMinPickInfo... Generating docs for namespace RingUtils Generating docs for namespace SmilesParseOps Generating docs for namespace SmilesParseOps::detail Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating topic index... Generating module index... Generating module member index... Generating namespace index... Generating namespace member index... Generating concept index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Running plantuml with JAVA... type lookup cache used 16680/65536 hits=66662 misses=21172 symbol lookup cache used 31648/65536 hits=247936 misses=31648 finished... (cd /build/reproducible-path/rdkit-202503.6/Docs/Book; RDBASE=/build/reproducible-path/rdkit-202503.6 /usr/bin/make html) make[2]: Entering directory '/build/reproducible-path/rdkit-202503.6/Docs/Book' mkdir -p _build/html/cppapi cp -r /build/reproducible-path/rdkit-202503.6/Code/docs/* _build/html/cppapi cp -r C++Examples _build/html/ sphinx-build -b html -d _build/doctrees . _build/html Running Sphinx v8.2.3 loading translations [en]... done WARNING: html_static_path entry '_static' does not exist myst v4.0.1: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions=set(), disable_syntax=[], all_links_external=False, links_external_new_tab=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, fence_as_directive=set(), number_code_blocks=[], title_to_header=False, heading_anchors=0, heading_slug_func=None, html_meta={}, footnote_sort=True, footnote_transition=True, words_per_minute=200, substitutions={}, linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area', enable_checkboxes=False, suppress_warnings=[], highlight_code_blocks=True) building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 267 source files that are out of date updating environment: [new config] 267 added, 0 changed, 0 removed reading sources... 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[100%] source/rdkit.utils.spiral /build/reproducible-path/rdkit-202503.6/Docs/Book/BackwardsIncompatibleChanges.md:49: WARNING: duplicate label changes to canonicalization, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/BackwardsIncompatibleChanges.md [autosectionlabel.BackwardsIncompatibleChanges] /build/reproducible-path/rdkit-202503.6/Docs/Book/Cartridge.md:732: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/BackwardsIncompatibleChanges.md [autosectionlabel.Cartridge] /build/reproducible-path/rdkit-202503.6/Docs/Book/Cookbook.rst:7: WARNING: duplicate label introduction, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Cartridge.md [autosectionlabel.Cookbook] /build/reproducible-path/rdkit-202503.6/Docs/Book/Cookbook.rst:10: WARNING: duplicate label what is this?, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Cartridge.md [autosectionlabel.Cookbook] /build/reproducible-path/rdkit-202503.6/Docs/Book/Cookbook.rst:2581: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Cartridge.md [autosectionlabel.Cookbook] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md:3: WARNING: duplicate label what is this?, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Cookbook.rst [autosectionlabel.GettingStartedInC++] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md:305: WARNING: duplicate label writing molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Cookbook.rst [autosectionlabel.GettingStartedInC++] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:1721: WARNING: image file not readable: images/rascal_1.png [image.not_readable] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:1726: WARNING: image file not readable: images/rascal_2.png [image.not_readable] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:1731: WARNING: image file not readable: images/rascal_3.png [image.not_readable] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:12: WARNING: duplicate label what is this?, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:30: WARNING: duplicate label reading single molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:104: WARNING: duplicate label reading sets of molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:208: WARNING: duplicate label writing molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:393: WARNING: duplicate label writing sets of molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:434: WARNING: duplicate label working with molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:438: WARNING: duplicate label looping over atoms and bonds, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:481: WARNING: duplicate label ring information, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:550: WARNING: duplicate label modifying molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:618: WARNING: duplicate label working with 2d molecules: generating depictions, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:668: WARNING: duplicate label working with 3d molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:794: WARNING: duplicate label preserving molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:850: WARNING: duplicate label drawing molecules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:1089: WARNING: duplicate label substructure searching, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:1154: WARNING: duplicate label stereochemistry in substructure matches, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:1192: WARNING: duplicate label atom map indices in smarts, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:3362: WARNING: duplicate label substructure searching, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:3632: WARNING: duplicate label the sssr problem, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst:4046: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Cookbook.rst [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md:424: WARNING: duplicate label building rdkit for development, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md:430: WARNING: duplicate label where should i put my code?, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md:434: WARNING: duplicate label coding standards, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md:447: WARNING: duplicate label tests, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md:481: WARNING: duplicate label documentation, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202503.6/Docs/Book/Install.md:430: WARNING: duplicate label recommended extras, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Install.md [autosectionlabel.Install] /build/reproducible-path/rdkit-202503.6/Docs/Book/Install.md:474: WARNING: duplicate label testing the build (optional, but recommended), other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Install.md [autosectionlabel.Install] /build/reproducible-path/rdkit-202503.6/Docs/Book/Install.md:479: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst [autosectionlabel.Install] /build/reproducible-path/rdkit-202503.6/Docs/Book/Overview.md:106: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Install.md [autosectionlabel.Overview] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:2834: WARNING: Title underline too short. Self-Contained Structure Representations (SCSR) for Macromolecules ******************* [docutils] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:2937: WARNING: Bullet list ends without a blank line; unexpected unindent. [docutils] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:2941: WARNING: Bullet list ends without a blank line; unexpected unindent. [docutils] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:2946: WARNING: Title underline too short. Hydrogen Bonds ------- [docutils] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:3024: ERROR: Error in "image" directive: no content permitted. .. image:: images/WobbleRna.png Full Example of SCSR files: [docutils] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:3027: WARNING: Explicit markup ends without a blank line; unexpected unindent. [docutils] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:179: WARNING: duplicate label aromaticity, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:388: WARNING: duplicate label dative bonds, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:702: WARNING: duplicate label stereochemistry, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Cookbook.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:1431: WARNING: duplicate label chemical features, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:2633: WARNING: duplicate label introduction, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Cookbook.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:2731: WARNING: duplicate label rdkit fingerprints, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/GettingStartedInPython.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:2843: WARNING: duplicate label representation, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202503.6/Docs/Book/RDKit_Book.rst:3099: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/Overview.md [autosectionlabel.RDKit_Book] WARNING: autodoc: failed to import module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Avalon' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Avalon.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.rst [autosectionlabel.source/rdkit.Avalon] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Avalon.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.rst [autosectionlabel.source/rdkit.Avalon] WARNING: autodoc: failed to import module 'Avalon.pyAvalonTools' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.rst:5: WARNING: duplicate label subpackages, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.rst [autosectionlabel.source/rdkit.Chem] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.rst:28: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Avalon.rst [autosectionlabel.source/rdkit.Chem] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.rst:120: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Avalon.rst [autosectionlabel.source/rdkit.Chem] WARNING: autodoc: failed to import module 'Chem.AllChem' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.AtomPairs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.AtomPairs.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.rst [autosectionlabel.source/rdkit.Chem.AtomPairs] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.AtomPairs.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.rst [autosectionlabel.source/rdkit.Chem.AtomPairs] WARNING: autodoc: failed to import module 'Chem.AtomPairs.Pairs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.AtomPairs.Sheridan' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.AtomPairs.Torsions' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.AtomPairs.Utils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.BRICS' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.BuildFragmentCatalog' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ChemUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.ChemUtils.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.AtomPairs.rst [autosectionlabel.source/rdkit.Chem.ChemUtils] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.ChemUtils.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.AtomPairs.rst [autosectionlabel.source/rdkit.Chem.ChemUtils] WARNING: autodoc: failed to import module 'Chem.ChemUtils.AlignDepict' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ChemUtils.BulkTester' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ChemUtils.DescriptorUtilities' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ChemUtils.SDFToCSV' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ChemUtils.TemplateExpand' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ChemicalFeatures' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ChemicalForceFields' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Crippen' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Descriptors' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Descriptors3D' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Draw' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Draw.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.ChemUtils.rst [autosectionlabel.source/rdkit.Chem.Draw] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Draw.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.ChemUtils.rst [autosectionlabel.source/rdkit.Chem.Draw] WARNING: autodoc: failed to import module 'Chem.Draw.IPythonConsole' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Draw.MolDrawing' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Draw.SimilarityMaps' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Draw.rdMolDraw2D' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Draw.rdMolDraw2DQt' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.EState' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.EState.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Draw.rst [autosectionlabel.source/rdkit.Chem.EState] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.EState.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Draw.rst [autosectionlabel.source/rdkit.Chem.EState] WARNING: autodoc: failed to import module 'Chem.EState.AtomTypes' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.EState.EState' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.EState.EState_VSA' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.EState.Fingerprinter' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.EnumerateHeterocycles' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.EnumerateStereoisomers' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FastSDMolSupplier' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FeatFinderCLI' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FeatMaps' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.FeatMaps.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.EState.rst [autosectionlabel.source/rdkit.Chem.FeatMaps] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.FeatMaps.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.EState.rst [autosectionlabel.source/rdkit.Chem.FeatMaps] WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapParser' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapPoint' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMaps' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Features' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Features.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.FeatMaps.rst [autosectionlabel.source/rdkit.Chem.Features] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Features.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.FeatMaps.rst [autosectionlabel.source/rdkit.Chem.Features] WARNING: autodoc: failed to import module 'Chem.Features.FeatDirUtilsRD' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Features.ShowFeats' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FilterCatalog' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Fingerprints' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Fingerprints.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Features.rst [autosectionlabel.source/rdkit.Chem.Fingerprints] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Fingerprints.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Features.rst [autosectionlabel.source/rdkit.Chem.Fingerprints] WARNING: autodoc: failed to import module 'Chem.Fingerprints.ClusterMols' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Fingerprints.DbFpSupplier' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Fingerprints.FingerprintMols' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Fingerprints.MolSimilarity' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Fingerprints.SimilarityScreener' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Fraggle' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Fraggle.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Fingerprints.rst [autosectionlabel.source/rdkit.Chem.Fraggle] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Fraggle.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Fingerprints.rst [autosectionlabel.source/rdkit.Chem.Fraggle] WARNING: autodoc: failed to import module 'Chem.Fraggle.FraggleSim' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FragmentCatalog' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FragmentMatcher' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Fragments' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.FunctionalGroups' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.GraphDescriptors' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Graphs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Lipinski' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MACCSkeys' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MolCatalog' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MolDb' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolDb.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Fraggle.rst [autosectionlabel.source/rdkit.Chem.MolDb] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolDb.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Fraggle.rst [autosectionlabel.source/rdkit.Chem.MolDb] WARNING: autodoc: failed to import module 'Chem.MolDb.FingerprintUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MolDb.Loader' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_orig' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_sa' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MolKey' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolKey.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolDb.rst [autosectionlabel.source/rdkit.Chem.MolKey] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolKey.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolDb.rst [autosectionlabel.source/rdkit.Chem.MolKey] WARNING: autodoc: failed to import module 'Chem.MolKey.InchiInfo' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MolKey.MolKey' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolStandardize.rst:6: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolKey.rst [autosectionlabel.source/rdkit.Chem.MolStandardize] WARNING: autodoc: failed to import module 'Chem.MolStandardize.rdMolStandardize' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.MolSurf' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.PandasTools' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.PeriodicTable' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Pharm2D' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Pharm2D.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolStandardize.rst [autosectionlabel.source/rdkit.Chem.Pharm2D] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Pharm2D.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.MolKey.rst [autosectionlabel.source/rdkit.Chem.Pharm2D] WARNING: autodoc: failed to import module 'Chem.Pharm2D.Generate' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Pharm2D.Gobbi_Pharm2D' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Pharm2D.Matcher' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Pharm2D.SigFactory' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Pharm2D.Utils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Pharm3D' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Pharm3D.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Pharm2D.rst [autosectionlabel.source/rdkit.Chem.Pharm3D] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Pharm3D.rst:14: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Pharm2D.rst [autosectionlabel.source/rdkit.Chem.Pharm3D] WARNING: autodoc: failed to import module 'Chem.Pharm3D.EmbedLib' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Pharm3D.ExcludedVolume' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Pharm3D.Pharmacophore' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.PropertyMol' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.PyMol' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.QED' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Randomize' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Recap' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ReducedGraphs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.RegistrationHash' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.SATIS' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.SaltRemover' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Scaffolds' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Scaffolds.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Pharm3D.rst [autosectionlabel.source/rdkit.Chem.Scaffolds] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Scaffolds.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Pharm3D.rst [autosectionlabel.source/rdkit.Chem.Scaffolds] WARNING: autodoc: failed to import module 'Chem.Scaffolds.MurckoScaffold' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Scaffolds.rdScaffoldNetwork' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.ShowMols' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.SimpleEnum' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.SimpleEnum.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Scaffolds.rst [autosectionlabel.source/rdkit.Chem.SimpleEnum] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.SimpleEnum.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Scaffolds.rst [autosectionlabel.source/rdkit.Chem.SimpleEnum] WARNING: autodoc: failed to import module 'Chem.SimpleEnum.Enumerator' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.SpacialScore' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Subshape' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Subshape.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.SimpleEnum.rst [autosectionlabel.source/rdkit.Chem.Subshape] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Subshape.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.SimpleEnum.rst [autosectionlabel.source/rdkit.Chem.Subshape] WARNING: autodoc: failed to import module 'Chem.Subshape.BuilderUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeAligner' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeBuilder' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeObjects' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Suppliers' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Suppliers.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Subshape.rst [autosectionlabel.source/rdkit.Chem.Suppliers] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Suppliers.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Subshape.rst [autosectionlabel.source/rdkit.Chem.Suppliers] WARNING: autodoc: failed to import module 'Chem.Suppliers.DbMolSupplier' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.Suppliers.MolSupplier' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.TemplateAlign' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.TorsionFingerprints' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.fmcs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.fmcs.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Suppliers.rst [autosectionlabel.source/rdkit.Chem.fmcs] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.fmcs.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.Suppliers.rst [autosectionlabel.source/rdkit.Chem.fmcs] WARNING: autodoc: failed to import module 'Chem.fmcs.fmcs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.inchi' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdAbbreviations' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdCIPLabeler' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdChemReactions' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdChemicalFeatures' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdCoordGen' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdDepictor' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdDeprotect' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdDetermineBonds' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdDistGeom' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdEHTTools' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdEnumerateStereoisomers' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdFMCS' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdFingerprintGenerator' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdForceFieldHelpers' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdFreeSASA' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdGeneralizedSubstruct' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMHFPFingerprint' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMIF' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMMPA' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolAlign' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolCatalog' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolChemicalFeatures' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolDescriptors' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolEnumerator' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolHash' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolInterchange' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolProcessing' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdMolTransforms' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdPartialCharges' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdRGroupDecomposition' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdRascalMCES' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdReducedGraphs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdSLNParse' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdShapeAlign' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdShapeHelpers' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdSubstructLibrary' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdSynthonSpaceSearch' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdTautomerQuery' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdchem' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdfiltercatalog' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdfragcatalog' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdinchi' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdmolfiles' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdmolops' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdqueries' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Chem.rdtrajectory' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DataManip' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataManip.rst:5: WARNING: duplicate label subpackages, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.rst [autosectionlabel.source/rdkit.DataManip] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataManip.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.fmcs.rst [autosectionlabel.source/rdkit.DataManip] WARNING: autodoc: failed to import module 'DataManip.Metric' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataManip.Metric.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Chem.fmcs.rst [autosectionlabel.source/rdkit.DataManip.Metric] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataManip.Metric.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataManip.rst [autosectionlabel.source/rdkit.DataManip.Metric] WARNING: autodoc: failed to import module 'DataManip.Metric.rdMetricMatrixCalc' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DataStructs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataStructs.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataManip.Metric.rst [autosectionlabel.source/rdkit.DataStructs] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataStructs.rst:18: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataManip.Metric.rst [autosectionlabel.source/rdkit.DataStructs] WARNING: autodoc: failed to import module 'DataStructs.BitEnsemble' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DataStructs.BitEnsembleDb' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DataStructs.BitUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DataStructs.LazySignature' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DataStructs.TopNContainer' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DataStructs.VectCollection' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DataStructs.cDataStructs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Dbase' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Dbase.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataStructs.rst [autosectionlabel.source/rdkit.Dbase] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Dbase.rst:17: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataStructs.rst [autosectionlabel.source/rdkit.Dbase] WARNING: autodoc: failed to import module 'Dbase.DbConnection' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Dbase.DbInfo' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Dbase.DbModule' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Dbase.DbResultSet' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Dbase.DbUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Dbase.StorageUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'DistanceGeometry' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DistanceGeometry.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Dbase.rst [autosectionlabel.source/rdkit.DistanceGeometry] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DistanceGeometry.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Dbase.rst [autosectionlabel.source/rdkit.DistanceGeometry] WARNING: autodoc: failed to import module 'DistanceGeometry.DistGeom' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ForceField.rst:5: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils] WARNING: autodoc: failed to import module 'ForceField' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ForceField.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DistanceGeometry.rst [autosectionlabel.source/rdkit.ForceField] WARNING: autodoc: failed to import module 'ForceField.rdForceField' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Geometry' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Geometry.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DistanceGeometry.rst [autosectionlabel.source/rdkit.Geometry] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Geometry.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ForceField.rst [autosectionlabel.source/rdkit.Geometry] WARNING: autodoc: failed to import module 'Geometry.rdGeometry' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.rst:5: WARNING: duplicate label subpackages, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.DataManip.rst [autosectionlabel.source/rdkit.ML] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.rst:18: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Geometry.rst [autosectionlabel.source/rdkit.ML] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.rst:26: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Geometry.rst [autosectionlabel.source/rdkit.ML] WARNING: autodoc: failed to import module 'ML.Cluster' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Cluster.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.rst [autosectionlabel.source/rdkit.ML.Cluster] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Cluster.rst:19: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.rst [autosectionlabel.source/rdkit.ML.Cluster] WARNING: autodoc: failed to import module 'ML.Cluster.Butina' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Cluster.ClusterUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Cluster.ClusterVis' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Cluster.Clustering' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Cluster.Clusters' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Cluster.Murtagh' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Cluster.Resemblance' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Cluster.Standardize' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Data' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Data.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Cluster.rst [autosectionlabel.source/rdkit.ML.Data] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Data.rst:19: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Cluster.rst [autosectionlabel.source/rdkit.ML.Data] WARNING: autodoc: failed to import module 'ML.Data.DataUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Data.FindQuantBounds' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Data.MLData' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Data.Quantize' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Data.SplitData' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Data.Stats' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Data.Transforms' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Data.cQuantize' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Descriptors' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Descriptors.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Data.rst [autosectionlabel.source/rdkit.ML.Descriptors] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Descriptors.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Data.rst [autosectionlabel.source/rdkit.ML.Descriptors] WARNING: autodoc: failed to import module 'ML.Descriptors.CompoundDescriptors' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Descriptors.Descriptors' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Descriptors.MoleculeDescriptors' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Descriptors.Parser' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.InfoTheory' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.InfoTheory.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Descriptors.rst [autosectionlabel.source/rdkit.ML.InfoTheory] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.InfoTheory.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Descriptors.rst [autosectionlabel.source/rdkit.ML.InfoTheory] WARNING: autodoc: failed to import module 'ML.InfoTheory.BitClusterer' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.InfoTheory.BitRank' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.InfoTheory.entropy' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.InfoTheory.rdInfoTheory' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.MLUtils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.MLUtils.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.InfoTheory.rst [autosectionlabel.source/rdkit.ML.MLUtils] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.MLUtils.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.InfoTheory.rst [autosectionlabel.source/rdkit.ML.MLUtils] WARNING: autodoc: failed to import module 'ML.MLUtils.VoteImg' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.MatOps' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.SLT' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.SLT.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.MLUtils.rst [autosectionlabel.source/rdkit.ML.SLT] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.SLT.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.MLUtils.rst [autosectionlabel.source/rdkit.ML.SLT] WARNING: autodoc: failed to import module 'ML.SLT.Risk' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.Scoring' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Scoring.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.SLT.rst [autosectionlabel.source/rdkit.ML.Scoring] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Scoring.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.SLT.rst [autosectionlabel.source/rdkit.ML.Scoring] WARNING: autodoc: failed to import module 'ML.Scoring.Scoring' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'ML.files' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'Numerics' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Numerics.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Scoring.rst [autosectionlabel.source/rdkit.Numerics] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Numerics.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.Scoring.rst [autosectionlabel.source/rdkit.Numerics] WARNING: autodoc: failed to import module 'Numerics.rdAlignment' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'RDConfig' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'RDLogger' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'RDPaths' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'RDRandom' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'SimDivFilters' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.SimDivFilters.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Numerics.rst [autosectionlabel.source/rdkit.SimDivFilters] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.SimDivFilters.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.Numerics.rst [autosectionlabel.source/rdkit.SimDivFilters] WARNING: autodoc: failed to import module 'SimDivFilters.SimilarityPickers' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'SimDivFilters.rdSimDivPickers' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'TestRunner' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.rst:5: WARNING: duplicate label subpackages, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.ML.rst [autosectionlabel.source/rdkit.VLib] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.rst:12: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.SimDivFilters.rst [autosectionlabel.source/rdkit.VLib] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.rst:23: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.SimDivFilters.rst [autosectionlabel.source/rdkit.VLib] WARNING: autodoc: failed to import module 'VLib.Filter' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.Node' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.NodeLib' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.NodeLib.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.rst [autosectionlabel.source/rdkit.VLib.NodeLib] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.NodeLib.rst:19: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.rst [autosectionlabel.source/rdkit.VLib.NodeLib] WARNING: autodoc: failed to import module 'VLib.NodeLib.DbMolSupply' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.NodeLib.DbPickleSupplier' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.NodeLib.SDSupply' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsMolFilter' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsRemover' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesDupeFilter' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesOutput' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesSupply' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.Output' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.Supply' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'VLib.Transform' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'rdBase' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'utils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.utils.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.NodeLib.rst [autosectionlabel.source/rdkit.utils] /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.utils.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202503.6/Docs/Book/source/rdkit.VLib.NodeLib.rst [autosectionlabel.source/rdkit.utils] WARNING: autodoc: failed to import module 'utils.cactvs' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'utils.chemutils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'utils.fileutils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'utils.listutils' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'utils.spiral' from module 'rdkit'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'rdkit'\n"] [autodoc.import_object] looking for now-outdated files... none found pickling environment... done checking consistency... /build/reproducible-path/rdkit-202503.6/Docs/Book/data/README.md: WARNING: document isn't included in any toctree [toc.not_included] done preparing documents... done copying assets... copying downloadable files... [ 5%] C++Examples/example1.cpp copying downloadable files... [ 11%] C++Examples/example2.cpp copying downloadable files... [ 16%] C++Examples/example3.cpp copying downloadable files... [ 21%] C++Examples/example4.cpp copying downloadable files... [ 26%] C++Examples/example5.cpp copying downloadable files... [ 32%] C++Examples/example6.cpp copying downloadable files... [ 37%] C++Examples/example7.cpp copying downloadable files... [ 42%] C++Examples/example8.cpp copying downloadable files... [ 47%] C++Examples/example9.cpp copying downloadable files... [ 53%] ../../Code/GraphMol/Bond.h copying downloadable files... [ 58%] C++Examples/example10.cpp copying downloadable files... [ 63%] C++Examples/CMakeLists.txt copying downloadable files... [ 68%] C++Examples/example11.cpp copying downloadable files... [ 74%] C++Examples/example12.cpp copying downloadable files... [ 79%] C++Examples/example13.cpp copying downloadable files... [ 84%] C++Examples/example17.cpp copying downloadable files... [ 89%] C++Examples/example14.cpp copying downloadable files... [ 95%] C++Examples/example15.cpp copying downloadable files... [100%] C++Examples/example16.cpp copying static files... Writing evaluated template result to /build/reproducible-path/rdkit-202503.6/Docs/Book/_build/html/_static/documentation_options.js Writing evaluated template result to /build/reproducible-path/rdkit-202503.6/Docs/Book/_build/html/_static/language_data.js Writing evaluated template result to /build/reproducible-path/rdkit-202503.6/Docs/Book/_build/html/_static/basic.css Writing evaluated template result to /build/reproducible-path/rdkit-202503.6/Docs/Book/_build/html/_static/sphinxdoc.css copying static files: done copying extra files... copying extra files: done copying assets: done writing output... [ 0%] BackwardsIncompatibleChanges writing output... [ 1%] Cartridge writing output... [ 1%] Cookbook writing output... [ 1%] GettingStartedInC++ writing output... 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[ 99%] images/query_atoms.png copying images... [ 99%] images/PeptideConversion.png copying images... [100%] images/DnaDoubleStrand.png dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 391 warnings. The HTML pages are in _build/html. Build finished. The HTML pages are in _build/html. make[2]: Leaving directory '/build/reproducible-path/rdkit-202503.6/Docs/Book' # latexpdf build fails due to https://github.com/rdkit/rdkit/issues/8850 # (cd /build/reproducible-path/rdkit-202503.6/Docs/Book; RDBASE=/build/reproducible-path/rdkit-202503.6 /usr/bin/make latexpdf) make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' cp -r rdkit obj-*/ find /build/reproducible-path/rdkit-202503.6 -name rdchem.so /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so PYTHONPATH=/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/:/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//rdkit/Chem/ LD_LIBRARY_PATH="/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib:" dh_auto_test cd obj-aarch64-linux-gnu && make -j8 test ARGS\+=--verbose ARGS\+=-j8 make[2]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' Running tests... /usr/bin/ctest --timeout=7200 --verbose -j8 UpdateCTestConfiguration from :/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end Connected to MAKE jobserver test 1 Start 1: testCoordGen 1: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen/testCoordGen 1: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen 1: Test timeout computed to be: 7200 test 2 Start 2: pyCoordGen 2: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/External/CoordGen/Wrap/testCoordGen.py" 2: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen/Wrap 2: Test timeout computed to be: 7200 test 3 Start 3: testDict 3: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral/testDict 3: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral 3: Test timeout computed to be: 7200 test 4 Start 4: testRDValue 4: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral/testRDValue 4: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral 4: Test timeout computed to be: 7200 test 5 Start 5: testConcurrentQueue 5: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral/testConcurrentQueue 5: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral 5: Test timeout computed to be: 7200 test 6 Start 6: dictTestsCatch 6: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral/dictTestsCatch 6: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral 6: Test timeout computed to be: 7200 test 7 Start 7: logTestsCatch 7: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral/logTestsCatch 7: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral 7: Test timeout computed to be: 7200 test 8 Start 8: testDataStructs 8: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/testDataStructs 8: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs 8: Test timeout computed to be: 7200 3: Randomness seeded to: 765546428 3: static boost any:0.000233 s 3: dynamic boost any:0.000657 s 3: static RDAny:0.000124 s 3: dynamic RDAny:0.000704 s 3: static RDValue:1e-06 s 3: dynamic RDValue:0 s 3: [05:15:44] done: 0.000402 300000 3: [05:15:44] done: 0.000434 300000 3: [05:15:44] done: 0.000148 300000 3: [05:15:44] done: 0.002191 300000 3: [05:15:44] done: 0.000567 300000 3: =============================================================================== 3: All tests passed (223 assertions in 9 test cases) 3: 4: Randomness seeded to: 240922785 4: min: -2147483648 -2147483648 4: min: 0 0 4: min: 2.22507e-308 2.22507e-308 4: min: 1.17549e-38 1.17549e-38 4: min: 0 0 4: =============================================================================== 4: All tests passed (76 assertions in 9 test cases) 4: 6: Randomness seeded to: 19775149 6: =============================================================================== 6: All tests passed (32 assertions in 2 test cases) 6: 1/246 Test #3: testDict ............................... Passed 0.04 sec 2/246 Test #4: testRDValue ............................ Passed 0.03 sec 3/246 Test #6: dictTestsCatch ......................... Passed 0.02 sec test 9 Start 9: testFPB 9: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/testFPB 9: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs 9: Test timeout computed to be: 7200 test 10 Start 10: testMultiFPB 10: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/testMultiFPB 10: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs 10: Test timeout computed to be: 7200 test 11 Start 11: catchDataStructs 11: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/catchDataStructs 11: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs 11: Test timeout computed to be: 7200 7: [05:15:44] should not be silent 7: [05:15:44] should not be silent 7: Randomness seeded to: 3804366176 7: [05:15:44] should not be silent 7: [05:15:44] should not be silent 7: [05:15:44] should not be silent 7: [05:15:44] should not be silent 7: [05:15:44] should not be silent 7: [05:15:44] should not be silent 7: [05:15:44] should not be silent 7: [05:15:44] should not be silent 7: =============================================================================== 7: All tests passed (26 assertions in 3 test cases) 7: 4/246 Test #7: logTestsCatch .......................... Passed 0.03 sec 8: Randomness seeded to: 3073891526 8: 10, 11, 14, 8: t1: 10, 11, 14, 8: t2: 10, 11, 15, 17, 8: t1|t2: 10, 11, 14, 15, 17, 8: t1&t2: 10, 11, 8: t1^t2: 14, 15, 17, 8: ~t1: 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 12, 13, 15, 16, 17, 18, 19, 8: except test 12 Start 12: pyBV 12: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/testBV.py" 12: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap 12: Test timeout computed to be: 7200 8: 10, 11, 14, 8: t1: 10, 11, 14, 8: t2: 10, 11, 15, 17, 8: t1|t2: 10, 11, 14, 15, 17, 8: t1&t2: 10, 11, 8: t1^t2: 14, 15, 17, 8: ~t1: 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 12, 13, 15, 16, 17, 18, 19, 8: except 8: =============================================================================== 8: All tests passed (1055 assertions in 22 test cases) 8: 9: Randomness seeded to: 2592853087 9: =============================================================================== 9: All tests passed (632 assertions in 12 test cases) 9: 5/246 Test #8: testDataStructs ........................ Passed 0.03 sec 6/246 Test #9: testFPB ................................ Passed 0.03 sec test 13 Start 13: pyDiscreteValueVect 13: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/testDiscreteValueVect.py" 13: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap 13: Test timeout computed to be: 7200 test 14 Start 14: pyRealValueVect 14: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/testRealValueVect.py" 14: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap 14: Test timeout computed to be: 7200 11: Randomness seeded to: 3061298562 11: =============================================================================== 11: All tests passed (3 assertions in 1 test case) 11: 7/246 Test #11: catchDataStructs ....................... Passed 0.03 sec test 15 Start 15: pySparseIntVect 15: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/testSparseIntVect.py" 15: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap 15: Test timeout computed to be: 7200 1: core 1: RDKit 2D 1: 1: 4 4 0 0 0 0 0 0 0 0999 V2000 1: 0.6824 0.1850 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.1850 -0.6824 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.6824 -0.1850 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1850 0.6824 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 1 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 7 7 0 0 0 0 0 0 0 0999 V2000 1: 0.6496 0.9080 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3926 -0.0584 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4726 -0.5600 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3396 -0.0616 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2048 -0.5634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.3590 -0.3156 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.6160 0.6508 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 1 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 7 7 0 0 0 0 0 0 0 0999 V2000 1: 0.6824 0.1850 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.1850 -0.6824 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.6824 -0.1850 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1850 0.6824 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 1 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 10 10 0 0 0 0 0 0 0 0999 V2000 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 1 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 12 12 0 0 0 0 0 0 0 0999 V2000 1: 0.2846 -0.7516 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2790 -1.7516 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5898 -2.2466 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4530 -1.7418 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4476 -0.7418 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5788 -0.2468 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5732 0.7532 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2956 1.2484 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3012 2.2482 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1700 2.7434 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1590 0.7434 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1534 -0.2564 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 8 11 1 0 1: 11 12 1 0 1: 12 1 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 12 12 0 0 0 0 0 0 0 0999 V2000 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 8 11 1 0 1: 11 12 1 0 1: 12 1 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 10 10 0 0 0 0 0 0 0 0999 V2000 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 1 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 16 16 0 0 0 0 0 0 0 0999 V2000 1: 1.7868 0.7799 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.6532 1.2791 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.5187 0.7785 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.5180 -0.2215 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.6515 -0.7209 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.7860 -0.2201 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.9195 -0.7195 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0539 -0.2189 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8124 -0.7181 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.6780 -0.2175 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.5445 -0.7167 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.4101 -0.2161 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.2764 -0.7153 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.1421 -0.2147 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0547 0.7811 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.9211 1.2805 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 1 0 1: 11 12 1 0 1: 12 13 1 0 1: 13 14 1 0 1: 8 15 1 0 1: 15 16 1 0 1: 16 1 1 0 1: M END 1: 10: Randomness seeded to: 3046815282 10: =============================================================================== 10: All tests passed (228 assertions in 7 test cases) 10: 1: templated 1: RDKit 2D 1: 1: 16 16 0 0 0 0 0 0 0 0999 V2000 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 1 0 1: 11 12 1 0 1: 12 13 1 0 1: 13 14 1 0 1: 8 15 1 0 1: 15 16 1 0 1: 16 1 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 9 10 0 0 0 0 0 0 0 0999 V2000 1: 0.6718 -0.9994 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5374 -0.4988 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5366 0.5012 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6702 1.0006 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1954 0.4998 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1946 -0.5002 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1454 -0.8098 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.7338 -0.0014 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1466 0.8082 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 6 1 1 0 1: 9 5 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 19 21 0 0 0 0 0 0 0 0999 V2000 1: -0.5657 -0.9286 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4321 -0.4294 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2977 -0.9300 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2969 -1.9300 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.1625 -2.4306 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4329 0.5708 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5673 1.0714 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5681 2.0714 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2975 2.5720 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2975 2.5728 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.7969 3.4386 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2991 0.5720 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2999 -0.4278 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2513 -0.7362 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5609 -1.6870 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.5393 -1.8942 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8923 -2.4306 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.8381 0.0734 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2499 0.8820 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 1 0 1: 7 12 1 0 1: 12 13 1 0 1: 13 14 1 0 1: 14 15 1 0 1: 15 16 1 0 1: 15 17 1 0 1: 14 18 1 0 1: 18 19 1 0 1: 13 1 1 0 1: 19 12 1 0 1: 11 9 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 19 21 0 0 0 0 0 0 0 0999 V2000 1: 0.5360 -0.9365 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4021 -0.4366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.2680 -0.9366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.2680 -1.9366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4020 -2.4366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4021 0.5634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5360 1.0633 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5360 2.0634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.3300 2.5633 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3300 2.5633 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8300 3.4295 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.3300 0.5634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.3300 -0.4366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2812 -0.7457 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.5900 -1.6966 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.9208 -2.4398 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.5682 -1.9046 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.8686 0.0634 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2812 0.8725 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 1 0 1: 7 12 1 0 1: 12 13 1 0 1: 13 14 1 0 1: 14 15 1 0 1: 15 16 1 0 1: 15 17 1 0 1: 14 18 1 0 1: 18 19 1 0 1: 13 1 1 0 1: 19 12 1 0 1: 11 9 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 5 4 0 0 0 0 0 0 0 0999 V2000 1: 1.2134 -0.4976 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3464 0.0006 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3444 1.0006 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5186 -0.5010 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3856 -0.0028 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 1 0 1: 4 5 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 7 6 0 0 0 0 0 0 0 0999 V2000 1: -1.7333 -0.5679 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8661 -0.0697 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8641 0.9303 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0011 -0.5713 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8659 -0.0731 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8679 0.9269 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.7309 -0.5749 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 5 7 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 7 6 0 0 0 0 0 0 0 0999 V2000 1: 1.2227 -0.4921 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3464 0.0006 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3350 1.0058 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5185 -0.5117 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3902 -0.0216 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2506 -0.5314 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4014 0.9784 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 5 7 1 0 1: M END 1: 1: test1 1: RDKit 2D 1: 1: 12 12 0 0 0 0 0 0 0 0999 V2000 1: 0.3628 0.5403 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5014 1.0435 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3692 0.5467 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.2334 1.0497 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.1012 0.5529 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.3728 -0.4533 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5086 -0.9565 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3594 -0.4597 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2234 -0.9627 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.0912 -0.4657 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.0948 0.5341 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.9554 -0.9689 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 2 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 3 6 2 0 1: 6 7 1 0 1: 7 8 2 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 2 0 1: 10 12 1 0 1: 8 1 1 0 1: M END 1: 1: test2 1: RDKit 2D 1: 1: 5 4 0 0 0 0 0 0 0 0999 V2000 1: -0.4980 0.7210 0.0000 Cl 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0004 -0.1464 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8678 -0.6440 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5020 0.7182 0.0000 F 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8642 -0.6488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 1 0 1: 2 5 1 0 1: M END 1: 8/246 Test #10: testMultiFPB ........................... Passed 0.07 sec test 16 Start 16: pyFPB 16: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/testFPB.py" 16: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap 16: Test timeout computed to be: 7200 1: cyclosporine a 1: RDKit 2D 1: 1: 85 85 0 0 0 0 0 0 0 0999 V2000 1: 1.4840 -0.8529 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6174 -1.3521 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6176 -2.3509 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4860 -2.8479 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4912 -3.8491 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.3504 -2.3385 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.3352 -1.3311 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.1902 -0.7993 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.1580 0.1961 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.0642 -1.2607 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.9260 -0.7295 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.9144 0.3303 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 5.7766 0.8337 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.0008 0.8409 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.8596 1.9125 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.8162 2.2071 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.2038 1.4219 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.2560 3.1855 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.5280 4.2325 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.7128 4.8927 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.8530 5.8895 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.7676 4.5077 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0820 5.0835 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.9744 4.6151 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.8344 5.1337 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.9792 3.6203 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.8192 3.0813 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.7974 3.5817 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.7998 4.5809 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.7790 3.0789 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.8812 2.0705 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.1202 1.6015 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.4194 2.0931 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.0590 0.6211 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.8626 0.0983 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.8096 -0.8961 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.6470 -1.4375 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.9122 -1.3587 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.8776 -2.3565 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.9982 -2.8425 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1382 -2.3311 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.9886 -3.8459 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1202 -4.3461 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2526 -3.8491 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6116 -4.3521 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2494 -2.8505 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1228 -5.3475 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2584 -5.8507 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6092 -5.3541 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2624 -6.8511 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6018 -7.3547 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5982 -8.3547 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4624 -8.8579 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.9906 -5.8449 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.8520 -4.3501 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.7288 -2.8719 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.7098 -3.8701 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.6032 -2.3871 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.0646 -0.8235 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.7362 0.5679 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.5794 0.0605 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.5618 -0.9361 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -6.4498 0.5487 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.1628 0.1727 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.7698 1.6253 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.5952 2.1745 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -6.4896 1.7311 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.5292 3.1711 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.6054 3.6407 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.7186 2.0867 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0328 6.0847 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.4396 4.6417 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.4580 5.6909 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.3220 6.1985 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.5836 6.2065 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2682 3.0557 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.6630 2.5215 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 5.5876 2.1073 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.5648 3.5065 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 5.7968 -1.2481 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 6.6786 -0.7913 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 7.5218 -1.3355 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 6.7252 0.2017 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.0970 -2.2659 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.2220 -2.8307 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 3 2 1 1 1: 3 4 1 0 1: 4 5 2 0 1: 4 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 2 0 1: 8 10 1 0 1: 10 11 1 0 1: 11 12 1 0 1: 12 13 2 0 1: 12 14 1 0 1: 14 15 1 0 1: 15 16 1 0 1: 16 17 2 0 1: 16 18 1 0 1: 18 19 1 0 1: 19 20 1 0 1: 20 21 2 0 1: 20 22 1 0 1: 22 23 1 0 1: 23 24 1 0 1: 24 25 2 0 1: 24 26 1 0 1: 26 27 1 0 1: 27 28 1 0 1: 28 29 2 0 1: 28 30 1 0 1: 30 31 1 0 1: 31 32 1 0 1: 32 33 2 0 1: 32 34 1 0 1: 34 35 1 0 1: 35 36 1 0 1: 36 37 2 0 1: 36 38 1 0 1: 38 39 1 0 1: 39 40 1 0 1: 40 41 2 0 1: 40 42 1 0 1: 43 42 1 6 1: 43 44 1 0 1: 44 45 2 0 1: 44 46 1 0 1: 43 47 1 0 1: 47 48 1 0 1: 48 49 1 6 1: 48 50 1 0 1: 50 51 1 0 1: 51 52 2 0 1: 52 53 1 0 1: 47 54 1 1 1: 42 55 1 0 1: 39 56 1 6 1: 56 57 1 0 1: 56 58 1 0 1: 38 59 1 0 1: 35 60 1 6 1: 60 61 1 0 1: 61 62 1 0 1: 61 63 1 0 1: 34 64 1 0 1: 31 65 1 6 1: 65 66 1 0 1: 66 67 1 0 1: 66 68 1 0 1: 30 69 1 0 1: 27 70 1 6 1: 23 71 1 6 1: 19 72 1 6 1: 72 73 1 0 1: 73 74 1 0 1: 73 75 1 0 1: 18 76 1 0 1: 15 77 1 6 1: 77 78 1 0 1: 77 79 1 0 1: 11 80 1 6 1: 80 81 1 0 1: 81 82 1 0 1: 81 83 1 0 1: 10 84 1 0 1: 6 85 1 0 1: 46 3 1 0 1: M END 1: 1: single-double 1: RDKit 2D 1: 1: 17 16 0 0 0 0 0 0 0 0999 V2000 1: -6.9282 -0.2298 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -6.0618 0.2696 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -5.1962 -0.2312 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -4.3298 0.2682 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -3.4642 -0.2326 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.5978 0.2668 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.7322 -0.2340 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.8658 0.2654 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.0002 -0.2352 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.8662 0.2640 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.7318 -0.2366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.5982 0.2626 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.4638 -0.2380 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 4.3302 0.2612 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 5.1958 -0.2394 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 6.0622 0.2598 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 6.9278 -0.2408 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 2 3 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 11 2 3 1: 11 12 1 0 1: 12 13 2 3 1: 13 14 1 0 1: 14 15 2 3 1: 15 16 1 0 1: 16 17 1 0 1: M END 1: 1: cis-trans 1: RDKit 2D 1: 1: 10 9 0 0 0 0 0 0 0 0999 V2000 1: -3.6370 -0.2028 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.7706 -0.7022 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.9050 -0.2016 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.0386 -0.7008 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1730 -0.2002 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.6934 -0.6994 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5590 -0.1988 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.5582 0.8012 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.4238 1.3020 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 3.2902 0.8026 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 2 0 1: 3 4 1 0 1: 4 5 2 0 1: 5 6 1 0 1: 6 7 2 0 1: 7 8 1 0 1: 8 9 2 0 1: 9 10 1 0 1: M END 1: 1: admntn 1: RDKit 2D 1: 1: 10 12 0 0 0 0 0 0 0 0999 V2000 1: 1.3505 -0.5360 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5267 -1.1020 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4629 -1.0366 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.7523 0.0052 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4741 0.5660 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4761 0.5032 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3505 1.0730 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.0611 0.5080 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0643 0.5686 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1877 -0.5490 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 6 10 1 0 1: 8 1 1 0 1: 9 4 1 0 1: 10 2 1 0 1: M END 1: 1: github 4845 - nan coordinates but no crash 1: RDKit 2D 1: 1: 42 44 0 0 0 0 0 0 0 0999 V2000 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan O 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan O 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan C 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: nan nan nan H 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 2 4 2 0 1: 4 5 1 0 1: 5 6 3 0 1: 6 7 1 0 1: 7 8 2 0 1: 8 9 1 0 1: 9 10 3 0 1: 10 11 1 0 1: 11 12 2 0 1: 12 13 1 0 1: 13 14 3 0 1: 14 15 1 0 1: 15 16 2 0 1: 16 17 1 0 1: 16 18 1 0 1: 12 19 1 0 1: 19 20 2 0 1: 20 21 1 0 1: 20 22 1 0 1: 19 23 1 0 1: 23 24 3 0 1: 24 25 1 0 1: 25 26 1 0 1: 26 27 2 0 1: 27 28 2 0 1: 26 29 1 0 1: 29 30 3 0 1: 8 31 1 0 1: 31 32 2 0 1: 32 33 1 0 1: 32 34 1 0 1: 31 35 1 0 1: 35 36 3 0 1: 36 37 1 0 1: 37 38 2 0 1: 37 39 1 0 1: 39 40 2 0 1: 40 41 1 0 1: 40 42 1 0 1: 39 4 1 0 1: 15 7 1 0 1: 30 11 1 0 1: M END 1: 9/246 Test #1: testCoordGen ........................... Passed 0.34 sec test 17 Start 17: testTransforms 17: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry/testTransforms 17: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry 17: Test timeout computed to be: 7200 17: Randomness seeded to: 646206153 17: Pt1: 1 0 0 Pt2: 2 0 0 17: -Pt1: -1 -0 -0 17: tp1: 0 0 0 tp2: 0 0 0 17: tp1: 0 0 0 tp2: 0 0 0 17: tp1: 0 0 3 tp2: 0 0 3 17: npt1: 0 0 3 npt2: 0 0 4 17: Pt1: 0 0 3 Pt2: 6.12323e-17 0 4 17: =============================================================================== 17: All tests passed (155 assertions in 7 test cases) 17: 10/246 Test #17: testTransforms ......................... Passed 0.02 sec test 18 Start 18: testGrid 18: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry/testGrid 18: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry 18: Test timeout computed to be: 7200 18: Randomness seeded to: 2692407515 18: =============================================================================== 18: All tests passed (79 assertions in 5 test cases) 18: 11/246 Test #18: testGrid ............................... Passed 0.03 sec test 19 Start 19: testRealValueGrid 19: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry/testRealValueGrid 19: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry 19: Test timeout computed to be: 7200 19: Randomness seeded to: 581641955 19: =============================================================================== 19: All tests passed (52 assertions in 4 test cases) 19: 12/246 Test #19: testRealValueGrid ...................... Passed 0.05 sec test 20 Start 20: geometryTestsCatch 20: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry/geometryTestsCatch 20: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry 20: Test timeout computed to be: 7200 14: ...... 14: ---------------------------------------------------------------------- 14: Ran 6 tests in 0.008s 14: 14: OK 20: Randomness seeded to: 1469133490 20: =============================================================================== 20: All tests passed (50 assertions in 5 test cases) 20: 13/246 Test #20: geometryTestsCatch ..................... Passed 0.02 sec test 21 Start 21: testPyGeometry 21: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/Geometry/Wrap/testGeometry.py" 21: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry/Wrap 21: Test timeout computed to be: 7200 13: ...... 13: ---------------------------------------------------------------------- 13: Ran 6 tests in 0.016s 13: 13: OK 15: ......... 15: ---------------------------------------------------------------------- 15: Ran 9 tests in 0.005s 15: 15: OK 16: ......... 16: ---------------------------------------------------------------------- 16: Ran 9 tests in 0.039s 16: 16: OK 14/246 Test #14: pyRealValueVect ........................ Passed 0.50 sec test 22 Start 22: testMatrices 22: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/testMatrices 22: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics 22: Test timeout computed to be: 7200 15/246 Test #13: pyDiscreteValueVect .................... Passed 0.51 sec test 23 Start 23: testConrec 23: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/testConrec 23: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics 23: Test timeout computed to be: 7200 16/246 Test #15: pySparseIntVect ........................ Passed 0.50 sec test 24 Start 24: testAlignment 24: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment/testAlignment 24: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment 24: Test timeout computed to be: 7200 22: Randomness seeded to: 2937735038 22: =============================================================================== 22: All tests passed (81 assertions in 4 test cases) 22: 17/246 Test #22: testMatrices ........................... Passed 0.02 sec test 25 Start 25: pyAlignment 25: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/Numerics/Alignment/Wrap/testAlignment.py" 25: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap 25: Test timeout computed to be: 7200 18/246 Test #16: pyFPB .................................. Passed 0.49 sec test 26 Start 26: testOptimizer 26: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Optimizer/testOptimizer 26: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Optimizer 26: Test timeout computed to be: 7200 23: Randomness seeded to: 109990328 23: =============================================================================== 23: All tests passed (76 assertions in 3 test cases) 23: 19/246 Test #23: testConrec ............................. Passed 0.03 sec test 27 Start 27: ForceFieldsCatch 27: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/ForceFieldsCatch 27: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField 27: Test timeout computed to be: 7200 24: Randomness seeded to: 1748716823 24: =============================================================================== 24: All tests passed (26 assertions in 4 test cases) 24: 20/246 Test #24: testAlignment .......................... Passed 0.03 sec test 28 Start 28: testUFFForceField 28: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/UFF/testUFFForceField 28: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/UFF 28: Test timeout computed to be: 7200 26: Randomness seeded to: 1590209391 26: =============================================================================== 26: All tests passed (26 assertions in 2 test cases) 26: 21/246 Test #26: testOptimizer .......................... Passed 0.03 sec test 29 Start 29: testMMFFForceField 29: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/MMFF/testMMFFForceField 29: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/MMFF 29: Test timeout computed to be: 7200 2: .... 2: ---------------------------------------------------------------------- 2: Ran 4 tests in 0.040s 2: 2: OK 28: ------------------------------------- 28: Unit tests for force field basics. 28: done 28: ------------------------------------- 28: Unit tests for basics of UFF bond-stretch terms. 28: done 28: ------------------------------------- 28: Unit tests for UFF bond-stretch terms. 28: done 28: ------------------------------------- 28: Unit tests for basics of UFF angle terms. 28: done 27: Randomness seeded to: 1082693828 27: =============================================================================== 27: All tests passed (20 assertions in 2 test cases) 27: 22/246 Test #27: ForceFieldsCatch ....................... Passed 0.04 sec test 30 Start 30: pyForceFieldConstraints 30: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/ForceField/Wrap/testConstraints.py" 30: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/Wrap 30: Test timeout computed to be: 7200 28: ------------------------------------- 28: Unit tests for UFF angle-bend terms. 28: theta = 3.14159; theta0 = 3.14159 28: theta = 2.094395, param1.theta0 = 2.094395 28: done 28: ------------------------------------- 28: Test Simple UFF molecule optimizations. 28: done 28: ------------------------------------- 28: Unit tests for UFF nonbonded terms. 28: done 28: ------------------------------------- 28: Test UFF torsional terms. 28: done 28: ------------------------------------- 28: Test UFF Parameter objects 28: ------------------------------------- 28: Test Simple UFF molecule optimization, part 2. 28: done 28: ------------------------------------- 28: Test UFF Torsion Conflicts. 28: C 0.4783 -0.7477 -0.0753 28: C -0.5465 -0.0176 0.3519 28: C -0.5114 1.4472 0.0870 28: H -1.5201 -0.4838 0.2485 28: H 0.4696 1.8363 0.3367 28: O -1.2618 1.9423 0.6934 28: F -0.7163 1.6298 -0.9622 28: done 28: ------------------------------------- 28: Unit tests for UFF distance constraint terms. 28: done 28: ------------------------------------- 28: Unit tests for all UFF constraint terms. 29: ------------------------------------- 29: Official MMFF validation suite. 28: done 28: ------------------------------------- 28: Unit tests for copying UFF ForceFields. 28: done 28: ------------------------------------- 28: Unit test for UFF butane scan. 23/246 Test #2: pyCoordGen ............................. Passed 0.75 sec test 31 Start 31: testDistGeom 31: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom/testDistGeom 31: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom 31: Test timeout computed to be: 7200 31: Randomness seeded to: 1762884691 31: Rows: 4 Columns: 4 31: 0 1 1 1 31: 1 0 1 1 31: 1 1 0 1 31: 1 1 1 0 31: =============================================================================== 31: All tests passed (28 assertions in 2 test cases) 31: 24/246 Test #31: testDistGeom ........................... Passed 0.03 sec test 32 Start 32: pyDistGeom 32: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/DistGeom/Wrap/rough_test.py" 32: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DistGeom/Wrap 32: Test timeout computed to be: 7200 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_dative.sdf... 21: .................... 21: ---------------------------------------------------------------------- 21: Ran 20 tests in 0.055s 21: 21: OK 21: Testing Geometry wrapper 25/246 Test #21: testPyGeometry ......................... Passed 0.44 sec test 33 Start 33: graphmolTest1 33: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 33: Test timeout computed to be: 7200 33: Atoms: 33: 0 8 O chg: 0 deg: 2 exp: 2 imp: 0 hyb: 33: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 33: 2 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 33: 3 6 C chg: 0 deg: 1 exp: 1 imp: 3 hyb: 33: 4 6 C chg: 0 deg: 1 exp: 1 imp: 3 hyb: 33: 5 6 C chg: 0 deg: 1 exp: 3 imp: 1 hyb: 33: 6 6 C chg: 0 deg: 2 exp: 4 imp: 0 hyb: 33: 7 7 N chg: 0 deg: 2 exp: 1 imp: 2 hyb: arom?: 1 query: AtomAtomicNum 33: 8 22 Ti chg: 0 deg: 1 exp: N/A imp: N/A hyb: 33: Bonds: 33: 0 0->1 order: 1 33: 1 1->2 order: 2 33: 2 2->3 order: 1 33: 3 0->4 order: 1 33: 4 5->6 order: 3 33: 5 6->7 order: 1 33: 6 7->8 order: 2 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: bond already exists 33: Violation occurred on line 506 in file ./Code/GraphMol/RWMol.cpp 33: Failed Expression: !(boost::edge(atomIdx1, atomIdx2, d_graph).second) 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::RWMol::addBond(unsigned int, unsigned int, RDKit::Bond::BondType) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000AAAAD095BA0C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000AAAAD0953D80 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 7# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: bond already exists 33: Violation occurred on line 506 in file ./Code/GraphMol/RWMol.cpp 33: Failed Expression: !(boost::edge(atomIdx1, atomIdx2, d_graph).second) 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::RWMol::addBond(unsigned int, unsigned int, RDKit::Bond::BondType) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000AAAAD095BC80 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000AAAAD0953D80 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 7# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: attempt to add self-bond 33: Violation occurred on line 505 in file ./Code/GraphMol/RWMol.cpp 33: Failed Expression: atomIdx1 != atomIdx2 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::RWMol::addBond(unsigned int, unsigned int, RDKit::Bond::BondType) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000AAAAD095BD94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000AAAAD0953D80 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 7# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: bond already exists 33: Violation occurred on line 419 in file ./Code/GraphMol/ROMol.cpp 33: Failed Expression: !(boost::edge(bond_pin->getBeginAtomIdx(), bond_pin->getEndAtomIdx(), d_graph) .second) 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::ROMol::addBond(RDKit::Bond*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000AAAAD095BDD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000AAAAD0953D80 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 7# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: attempt to add self-bond 33: Violation occurred on line 417 in file ./Code/GraphMol/ROMol.cpp 33: Failed Expression: bond_pin->getBeginAtomIdx() != bond_pin->getEndAtomIdx() 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::ROMol::addBond(RDKit::Bond*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000AAAAD095BF00 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000AAAAD0953D80 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 7# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] Explicit valence for atom # 0 B, 4, is greater than permitted 33: [05:15:45] Explicit valence for atom # 0 B, 4, is greater than permitted 28: done 26/246 Test #28: testUFFForceField ...................... Passed 0.32 sec test 34 Start 34: graphmolcpTest 34: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolcpTest 34: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 34: Test timeout computed to be: 7200 33: [05:15:45] 33: 33: **** 33: Post-condition Violation 33: Element 'Xx' not found 33: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 33: Failed Expression: anum > -1 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000AAAAD098A378 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000AAAAD096A558 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000AAAAD0953D8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 6# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 8# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] ------------------------------------- 33: [05:15:45] Test github381: thread-safe initialization of the periodic table 25: ..... 25: ---------------------------------------------------------------------- 25: Ran 5 tests in 0.001s 25: 25: OK 25: Testing Alignment Wrapper code: 34: 34: 34: 34: COPY 33: [05:15:45] done 33: [05:15:45] ------------------------------------- 33: [05:15:45] Test github1041: Segfault for atom with no owner (expect some warnings) 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: no owner 33: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 33: Failed Expression: dp_mol 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# 0x0000AAAAD097ACA4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000AAAAD0953DB0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 5# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: no owner 33: Violation occurred on line 187 in file ./Code/GraphMol/Bond.h 33: Failed Expression: dp_mol 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# 0x0000AAAAD097B0E0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000AAAAD0953DB0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 5# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] done 33: [05:15:45] ------------------------------------- 33: [05:15:45] Test github1041: Segfault for atom with no owner (expect some warnings) 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: no owner 33: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 33: Failed Expression: dp_mol 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# 0x0000AAAAD097ACA4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000AAAAD0953DB4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 5# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] 33: 33: **** 33: Pre-condition Violation 33: no owner 33: Violation occurred on line 187 in file ./Code/GraphMol/Bond.h 33: Failed Expression: dp_mol 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# 0x0000AAAAD097B0E0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000AAAAD0953DB4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000FFFF8C4A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 5# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 33: 6# 0x0000AAAAD0953E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [05:15:45] done 33: [05:15:45] ------------------------------------- 33: [05:15:45] Test github1453: RWMol.clear() should reset the numBonds count. 33: [05:15:45] done 33: [05:15:45] ------------------------------------- 33: [05:15:45] Test range-based for loops. 33: [05:15:45] done 33: [05:15:45] ------------------------------------- 33: [05:15:45] Test github1642: Atom index type is too low for big molecules. 27/246 Test #34: graphmolcpTest ......................... Passed 0.02 sec test 35 Start 35: graphmolqueryTest 35: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolqueryTest 35: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 35: Test timeout computed to be: 7200 35: [05:15:45] ---------------------- Test1 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test2 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test3 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test4 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test5 35: [05:15:45] Done! 35: [05:15:45] 35: 35: **** 35: Pre-condition Violation 35: Can't expand empty query 35: Violation occurred on line 30 in file ./Code/GraphMol/QueryAtom.cpp 35: Failed Expression: dp_query 35: ---------- 35: Stacktrace: 35: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 35: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 35: 2# RDKit::QueryAtom::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 35: 3# 0x0000AAAACFC97264 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolqueryTest 35: 4# 0x0000AAAACFC907AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolqueryTest 35: 5# 0x0000FFFF906A255C in /usr/lib/aarch64-linux-gnu/libc.so.6 35: 6# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 35: 7# 0x0000AAAACFC90870 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolqueryTest 35: ---------- 35: **** 35: 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test issue 2892580 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test github issue 53: query molecules not matching [R] 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test queries using qualifiers instead of == 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test Github issue 165: radicals not used in atom-atom matching 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test extra atom queries 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test extra bond queries 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test num heteroatom neighbor queries 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test atom type queries 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Test Github #2471: dummy atom queries are flagged as complex 35: [05:15:45] Done! 35: [05:15:45] ---------------------- Testing hasBondTypeQuery() and hasComplexBondTypeQuery() 35: [05:15:45] Done! 28/246 Test #35: graphmolqueryTest ...................... Passed 0.04 sec test 36 Start 36: graphmolMolOpsTest 36: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolMolOpsTest 36: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 36: Test timeout computed to be: 7200 29/246 Test #25: pyAlignment ............................ Passed 0.45 sec test 37 Start 37: graphmoltestChirality 37: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmoltestChirality 37: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 37: Test timeout computed to be: 7200 36: 1 1 2 36: 1 1 1 36: 2 1 0.75 36: path: 2 36: [05:15:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 10 ignored 36: [05:15:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 10 ignored 36: [05:15:45] Explicit valence for atom # 0 B, 5, is greater than permitted 36: [05:15:45] Explicit valence for atom # 1 C, 5, is greater than permitted 36: [05:15:45] Explicit valence for atom # 1 C, 5, is greater than permitted 36: [05:15:45] Explicit valence for atom # 1 C, 5, is greater than permitted 36: [05:15:45] Explicit valence for atom # 1 Si, 7, is greater than permitted 32: ...... 32: ---------------------------------------------------------------------- 32: Ran 6 tests in 0.009s 32: 32: OK 37: -------------------------- 37: -------------------------- 37: C/C=C/C(C)Cl 30: ...[05:15:45] Molecule does not have explicit Hs. Consider calling AddHs() 37: [05:15:45] Conflicting single bond directions around double bond at index 2. 37: [05:15:45] BondStereo set to STEREONONE and single bond directions set to NONE. 37: [05:15:45] Conflicting single bond directions around double bond at index 4. 37: [05:15:45] BondStereo set to STEREONONE and single bond directions set to NONE. 37: [05:15:45] Conflicting single bond directions around double bond at index 15. 37: [05:15:45] BondStereo set to STEREONONE and single bond directions set to NONE. 37: [05:15:45] Conflicting single bond directions around double bond at index 2. 37: [05:15:45] BondStereo set to STEREONONE and single bond directions set to NONE. 37: [05:15:45] Conflicting single bond directions around double bond at index 1. 37: [05:15:45] BondStereo set to STEREONONE and single bond directions set to NONE. 36: smi: Cc1ccc(S(=O)(=O)/N=C2\CC(=N\C(C)(C)C)/C2=N\C(C)(C)C)cc1 37: -------------------------------------------------- 30/246 Test #37: graphmoltestChirality .................. Passed 0.11 sec test 38 Start 38: graphmoltestPickler 38: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmoltestPickler 38: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 38: Test timeout computed to be: 7200 36: [05:15:45] non-ring atom 0 marked aromatic 36: [05:15:45] non-ring atom 0 marked aromatic 36: [05:15:45] Conflicting single bond directions around double bond at index 17. 36: [05:15:45] BondStereo set to STEREONONE and single bond directions set to NONE. 36: starting ring finding 36: done 36: starting ring finding 36: done 36: starting ring finding 36: done 36: C/C=N/c1ccc(cc1)c1cc2cc(c1)c1ccc(cc1)N=Cc1ccc(cc1)c1cc(cc(c1)c1ccc(cc1)C)c1ccc(cc1)C=Nc1ccc(cc1)c1cc(cc(c1)c1ccc(cc1)/N=C/C)c1ccc(cc1)N=Cc1ccc(cc1)c1cc(c3ccc(C=Nc4ccc(c5cc6c7ccc(N=Cc8ccc(c9cc(c%10ccc(C=Nc%11ccc2cc%11)cc%10)cc(c9)c2ccc(cc2)C=Nc2ccc(cc2)c2cc(cc(c2)c2ccc(cc2)N=Cc2ccc(cc2)c2cc(cc(c2)c2ccc(cc2)C)c2ccc(cc2)C=Nc2ccc(cc2)c2cc(c9ccc(N=Cc%10ccc(c%11cc(c%12ccc(C=Nc%13ccc(c(c6)c5)cc%13)cc%12)cc(c%11)c5ccc(cc5)C)cc%10)cc9)cc(c2)c2ccc(cc2)/N=C/C)c2ccc(cc2)/N=C/C)cc8)cc7)cc4)cc3)cc(c1)c1ccc(cc1)C 36: starting sanitization 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing String Pickle Roundtrips. 36: done 36: starting sanitization 36: done 31/246 Test #32: pyDistGeom ............................. Passed 0.43 sec test 39 Start 39: graphmoltestPicklerGlobalSetting 39: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmoltestPicklerGlobalSetting 39: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 39: Test timeout computed to be: 7200 36: starting ring finding 36: done 36: starting ring finding 36: done 36: smiles: CC[C@]1(C(=O)c([nH])n)CC[C@](C)(O)CC1 36: [05:15:45] WARNING: not removing hydrogen atom with dummy atom neighbors 36: ------------------------------- 36: [05:15:45] Explicit valence for atom # 0 N, 4, is greater than permitted 39: [05:15:45] done 32/246 Test #39: graphmoltestPicklerGlobalSetting ....... Passed 0.03 sec test 40 Start 40: graphmolIterTest 40: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolIterTest 40: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 40: Test timeout computed to be: 7200 36: [05:15:45] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 36: [05:15:45] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 36: [05:15:45] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 36: [05:15:45] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: [05:15:45] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: [05:15:45] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: [05:15:45] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: [05:15:45] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: 36: [05:15:45] WARNING: not removing hydrogen atom with dummy atom neighbors 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing reading existing pickle file (v2). 33/246 Test #40: graphmolIterTest ....................... Passed 0.03 sec test 41 Start 41: hanoiTest 41: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/hanoiTest 41: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 41: Test timeout computed to be: 7200 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing combining molecules using pickles. 38: Atoms: 38: 0 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 1 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 2 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 3 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 4 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 5 8 O chg: 0 deg: 2 exp: 2 imp: 0 hyb: SP3 38: 6 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: Bonds: 38: 0 0->1 order: 1 38: 1 1->2 order: 1 38: 2 2->0 order: 1 38: 3 3->4 order: 1 38: 4 4->5 order: 1 38: 5 5->6 order: 1 38: 6 6->3 order: 1 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing Issue164: Roundtrip Pickle Failure. 41: [05:15:45] Testing the hanoi sort 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing Issue219: Pickle Failure with Conformations. 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing Issue220: Pickle problems with bond stereochemistry. 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing query serialization. 38: [05:15:45] C=[$(C=O)] 38: [05:15:45] S(=O)(=O)-[C&H2][F,Br,I,Cl] S(=O)(=O)-[C&H2][F,Br,I,Cl] 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing radical handling in pickles. 38: [05:15:45] done 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing sf.net issue 2788233. 41: [05:15:45] populating vectors 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing sf.net issue 3202580. 38: mass! 13.0034 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing sf.net issue 3316407. 38: [05:15:45] done 38: [05:15:45] ------------------------------------- 38: [05:15:45] Testing sf.net issue 3496759. 38: smi match: *C *C 38: smi match: **=* **=* 38: smi match: [N-]=[N+]=NC=O [N-]=[N+]=NC=O 38: smi match: *OS(=O)OC *OS(=O)OC 38: smi match: *S(=O)(=O)OC *S(=O)(=O)OC 38: smi match: O=COC=O O=COC=O 38: smi match: OO OO 38: smi match: O=COc1c(F)c(F)c(F)c(F)c1F O=COc1c(F)c(F)c(F)c(F)c1F 38: smi match: O=COc1ccc(N(=O)=O)cc1 O=COc1ccc(N(=O)=O)cc1 38: smi match: nnnOC=O nnnOC=O 38: smi match: *=C=N *=C=N 38: smi match: OS(=O)(=O)C(F)(F)F OS(=O)(=O)C(F)(F)F 38: smi match: SP(S)=S SP(S)=S 38: smi match: NP(N)(N)=O NP(N)(N)=O 38: smi match: cN=[N+]=[N-] cN=[N+]=[N-] 38: smi match: *CC=O *CC=O 38: smi match: NNC=O NNC=O 38: smi match: * * 38: smi match: C=P C=P 38: smi match: CC(=N)Cl CC(=N)Cl 38: smi match: N=O N=O 38: smi match: ** ** 38: smi match: N=C=N N=C=N 38: smi match: [C-]#[NH+] [C-]#[NH+] 38: smi match: O=CON(C=O)C=O O=CON(C=O)C=O 38: smi match: N#CC[OH] N#CC[OH] 38: smi match: N#CC=O N#CC=O 38: smi match: N#CS(=O)=O N#CS(=O)=O 38: smi match: CCOP(=O)(C#N)OCC CCOP(=O)(C#N)OCC 38: smi match: N#CN=N N#CN=N 38: smi match: N=NCC=O N=NCC=O 38: smi match: CCCCCCC CCCCCCC 38: smi match: OCCOCCO OCCOCCO 38: smi match: SS SS 38: smi match: [SH] [SH] 38: smi match: *1CC1 *1CC1 38: smi match: [OH]ccc([OH])c[OH] [OH]ccc([OH])c[OH] 38: smi match: [OH]cc([OH])c[OH] [OH]cc([OH])c[OH] 38: smi match: NC(=S)N=N NC(=S)N=N 38: smi match: N#CS N#CS 38: smi match: cC[N+] cC[N+] 38: smi match: C*C=S C*C=S 38: smi match: N[CH2]C#N N[CH2]C#N 38: smi match: O=C1CCO1 O=C1CCO1 38: smi match: O=P([OH])OP(=O)[OH] O=P([OH])OP(=O)[OH] 38: smi match: O=C1CCN1 O=C1CCN1 38: smi match: O=C1C~CC(=O)C~C1 O=C1C~CC(=O)C~C1 38: smi match: C=CC=CC=CC=C C=CC=CC=CC=C 38: smi match: C1CCC(OC2CCC3CCCCC3C2)OC1 C1CCC(OC2CCC3CCCCC3C2)OC1 38: smi match: O=C1NCC2CCCCC21 O=C1NCC2CCCCC21 38: smi match: O=C1CCCC(=O)N1 O=C1CCCC(=O)N1 38: smi match: C1CCC(C2CCCO2)OC1 C1CCC(C2CCCO2)OC1 38: smi match: [OH]C1Cc2c([OH])cc([OH])cc2OC1c1ccc([OH])c([OH])c1 [OH]C1Cc2c([OH])cc([OH])cc2OC1c1ccc([OH])c([OH])c1 38: smi match: C1CC2CCC(O1)O2 C1CC2CCC(O1)O2 38: smi match: cN(=O)~O cN(=O)~O 38: smi match: *[CH2]N1C(=O)CCC1=O *[CH2]N1C(=O)CCC1=O 38: smi match: N~NC=O N~NC=O 38: smi match: *=N~C *=N~C 38: smi match: CO*(=O)=O CO*(=O)=O 38: smi match: * * 38: smi match: * * 38: smi match: *C=C *C=C 38: smi match: N#CS N#CS 38: smi match: *C=S *C=S 38: smi match: *N *N 38: smi match: *C(=C)C=O *C(=C)C=O 38: smi match: *C#C *C#C 38: smi match: N#CCO N#CCO 38: smi match: O=N(=O)CCO O=N(=O)CCO 38: smi match: N=CS N=CS 38: smi match: O=CNC(O)C=O O=CNC(O)C=O 38: smi match: C=C(C=O)C=O C=C(C=O)C=O 38: smi match: N=CC=O N=CC=O 38: smi match: *C(C=O)C=O *C(C=O)C=O 38: smi match: *C(C=O)=C(*)C=O *C(C=O)=C(*)C=O 38: smi match: O=CC=CC=O O=CC=CC=O 38: smi match: O=CN(O)C=O O=CN(O)C=O 38: smi match: O=CN(S)C=O O=CN(S)C=O 38: smi match: O=CNC=O O=CNC=O 38: smi match: O=CNN=O O=CNN=O 38: smi match: O=CNNC=O O=CNNC=O 38: smi match: O=CNOC=O O=CNOC=O 38: smi match: O=CS O=CS 38: smi match: O=CSC=S O=CSC=S 38: smi match: S=CS S=CS 38: smi match: C=O C=O 38: smi match: *C=N *C=N 38: smi match: CCCCCCC CCCCCCC 38: smi match: CN=O CN=O 38: smi match: CS(=O)(=O)O CS(=O)(=O)O 38: smi match: O=C1CCO1 O=C1CCO1 38: smi match: C=C(S)[SH]=O C=C(S)[SH]=O 38: smi match: C=CCO C=CCO 38: smi match: C=CC=N C=CC=N 38: smi match: C=CC=O C=CC=O 38: smi match: C=CC(=O)C=C C=CC(=O)C=C 38: smi match: C=CC=S C=CC=S 38: smi match: C=CC(=S)S C=CC(=S)S 38: smi match: *C=C(*)C=C *C=C(*)C=C 38: smi match: C=CC=N C=CC=N 38: smi match: *N(*)C=C *N(*)C=C 38: smi match: C=CN(=O)=O C=CN(=O)=O 38: smi match: C=CN(O)=O C=CN(O)=O 38: smi match: C=CO C=CO 38: smi match: C=COC=O C=COC=O 38: smi match: C=CS C=CS 38: smi match: C=C[SH](=O)=O C=C[SH](=O)=O 38: smi match: C=NCO C=NCO 38: smi match: C=NC=O C=NC=O 38: smi match: C=NN C=NN 38: smi match: C=NN=C C=NN=C 38: smi match: C=NO C=NO 38: smi match: C=NOC=O C=NOC=O 38: smi match: C=N=O C=N=O 38: smi match: N#CS N#CS 38: smi match: *CN=O *CN=O 38: smi match: NCN NCN 38: smi match: ON=CCN=O ON=CCN=O 38: smi match: NC(S)=N[SH](=O)=O NC(S)=N[SH](=O)=O 38: smi match: N=C(N)S N=C(N)S 38: smi match: NC(=O)Oc1ccccc1 NC(=O)Oc1ccccc1 38: smi match: NC=S NC=S 38: smi match: NC(N)=S NC(N)=S 38: smi match: C=CN C=CN 38: smi match: NOC=O NOC=O 38: smi match: C1CN1 C1CN1 38: smi match: O=C1NNNN1 O=C1NNNN1 38: smi match: N=C(N)C(=N)N N=C(N)C(=N)N 38: smi match: N=C(N)O N=C(N)O 38: smi match: N=C(N)C(=N)S N=C(N)C(=N)S 38: smi match: *C=N *C=N 38: smi match: N=CC=O N=CC=O 38: smi match: N=CS N=CS 38: smi match: N=C=N N=C=N 38: smi match: N=C=O N=C=O 38: smi match: N=C=S N=C=S 38: smi match: NOC(=O)O NOC(=O)O 38: smi match: *C(O)=S *C(O)=S 38: smi match: C=CO C=CO 38: smi match: ON=CC=NO ON=CC=NO 38: smi match: *C[SH](=O)=O *C[SH](=O)=O 38: smi match: OS(=O)=O OS(=O)=O 38: smi match: N#CS N#CS 38: smi match: C=C(S)S C=C(S)S 38: smi match: N=C(N)S N=C(N)S 38: smi match: N=C(S)S N=C(S)S 38: smi match: NC(=S)S NC(=S)S 38: smi match: O=CNS O=CNS 38: smi match: S S 38: smi match: [SiH4] [SiH4] 38: smi match: NS NS 38: smi match: NCN NCN 38: smi match: cC(c)(O)O cC(c)(O)O 38: smi match: *C(c)O *C(c)O 38: smi match: C=CS(c)(=O)=O C=CS(c)(=O)=O 38: smi match: cS(=O)(=O)O cS(=O)(=O)O 38: smi match: *c1ccccn1=O *c1ccccn1=O 38: smi match: *c1ccccn1 *c1ccccn1 38: smi match: *c1nccccn1 *c1nccccn1 38: smi match: C1COCOC1 C1COCOC1 38: smi match: C=S C=S 38: smi match: c=S c=S 38: smi match: S=CS S=CS 38: smi match: C=CN(=O)=O C=CN(=O)=O 38: smi match: C=CN(=O)O C=CN(=O)O 38: smi match: N=CC=O N=CC=O 38: smi match: C=CS C=CS 38: smi match: SC(S)(S)S SC(S)(S)S 38: smi match: OS(O)(O)O OS(O)(O)O 38: smi match: O=N(=O)C[SH](=O)=O O=N(=O)C[SH](=O)=O 38: smi match: O=N(O)C[SH](=O)=O O=N(O)C[SH](=O)=O 38: smi match: N#CS N#CS 38: smi match: C=NO C=NO 38: smi match: C=N[SH]=N C=N[SH]=N 38: smi match: O=C(S)S O=C(S)S 38: smi match: N=C(S)S N=C(S)S 38: smi match: N=C(=N)S N=C(=N)S 38: smi match: O=N=O O=N=O 38: smi match: O=NO O=NO 38: smi match: ONO ONO 38: smi match: C1SCS1 C1SCS1 38: smi match: N=C=S N=C=S 38: smi match: N=C=N N=C=N 38: smi match: C1N=N1 C1N=N1 38: smi match: *CS *CS 38: smi match: SC(S)=C(S)S SC(S)=C(S)S 38: smi match: N=CC=NO N=CC=NO 38: smi match: N#CCC#N N#CCC#N 38: smi match: CON=O CON=O 38: smi match: C=CN C=CN 38: smi match: C=N[SH](=O)=O C=N[SH](=O)=O 38: smi match: NN=O NN=O 38: smi match: NC(=O)S NC(=O)S 38: smi match: N#CS N#CS 38: smi match: NC(=O)C(N)=O NC(=O)C(N)=O 38: smi match: c=N c=N 38: smi match: C1COCO1 C1COCO1 38: smi match: C=NN[SH](=O)=O C=NN[SH](=O)=O 38: smi match: O=CC=O O=CC=O 38: smi match: O=CNOC=O O=CNOC=O 38: smi match: O=C1C=CC(=O)C=C1 O=C1C=CC(=O)C=C1 38: smi match: ONO ONO 38: smi match: ON(~O)~O ON(~O)~O 38: smi match: OC1COC(O)C1 OC1COC(O)C1 38: smi match: OC1CCOC1O OC1CCOC1O 38: smi match: OC1CCOC(O)C1 OC1CCOC(O)C1 38: smi match: N=[N+]=N N=[N+]=N 38: smi match: N#CN N#CN 38: smi match: C=NN=C C=NN=C 38: smi match: *CCN(C)C *CCN(C)C 38: smi match: CNN CNN 38: smi match: *CC *CC 38: smi match: OCS OCS 38: smi match: C1NO1 C1NO1 38: smi match: COS(C)(=O)=O COS(C)(=O)=O 38: smi match: C1CO1 C1CO1 38: smi match: *c1-c-c-ccN1 *c1-c-c-ccN1 38: smi match: *C(*)=C *C(*)=C 38: smi match: N#[NH+] N#[NH+] 38: smi match: C#NO C#NO 38: smi match: OOO OOO 38: smi match: OO OO 38: smi match: O~Cl(~O)~O O~Cl(~O)~O 38: smi match: O~Cl(~O)(~O)~O O~Cl(~O)(~O)~O 38: smi match: [OH]~C(~O)~O [OH]~C(~O)~O 38: smi match: *N *N 38: smi match: *P *P 38: smi match: *S *S 38: smi match: *C(*)(*)C=C *C(*)(*)C=C 38: smi match: *C(*)(*)C=C *C(*)(*)C=C 38: smi match: *C(*)C=C *C(*)C=C 38: smi match: *CC=C *CC=C 38: smi match: CN=C=O CN=C=O 38: smi match: CN=C=S CN=C=S 38: smi match: *C=O *C=O 38: smi match: N=N N=N 38: smi match: SS SS 38: smi match: O=C1CCNC(=O)O1 O=C1CCNC(=O)O1 38: smi match: CSC(C)=N CSC(C)=N 38: smi match: COC(C)=N COC(C)=N 38: smi match: C=C=C C=C=C 38: smi match: *C(=O)OC=O *C(=O)OC=O 38: smi match: C=CC#N C=CC#N 38: smi match: C=CC=O C=CC=O 38: smi match: CC=CC(C)=O CC=CC(C)=O 38: smi match: CC=CC(=O)OCC CC=CC(=O)OCC 38: smi match: C#CC#N C#CC#N 38: smi match: C#CC=O C#CC=O 38: smi match: C#CC(=O)OCC C#CC(=O)OCC 38: smi match: C#CC=O C#CC=O 38: smi match: *C(=O)C#C *C(=O)C#C 38: smi match: C=CC=O C=CC=O 38: smi match: *C(*)(*)O *C(*)(*)O 38: smi match: COS(O)(=O)=O COS(O)(=O)=O 38: smi match: CS(=O)(=O)[O-] CS(=O)(=O)[O-] 38: smi match: NS(=O)(=O)[O-] NS(=O)(=O)[O-] 38: smi match: *C(*)(*)C=O *C(*)(*)C=O 38: smi match: *C(*)(*)C=O *C(*)(*)C=O 38: smi match: *C(*)C=O *C(*)C=O 38: smi match: *CC=O *CC=O 38: smi match: *C(*)(*)[SH](=O)=O *C(*)(*)[SH](=O)=O 38: smi match: *C(*)(*)[SH](=O)=O *C(*)(*)[SH](=O)=O 38: smi match: *C(*)[SH](=O)=O *C(*)[SH](=O)=O 38: smi match: *C[SH](=O)=O *C[SH](=O)=O 38: smi match: * * 38: smi match: *1CC1 *1CC1 38: smi match: O=COC=O O=COC=O 38: smi match: N=C=O N=C=O 38: smi match: N=C=S N=C=S 38: smi match: O~O O~O 38: smi match: N~[SiH4] N~[SiH4] 38: smi match: *P *P 38: smi match: C=N=N C=N=N 38: smi match: *N#[NH+] *N#[NH+] 38: smi match: *S* *S* 38: smi match: ** ** 38: smi match: *CC* *CC* 38: smi match: *O[SiH3] *O[SiH3] 38: smi match: *OS(*)~O *OS(*)~O 38: smi match: N~N~O N~N~O 38: smi match: *N(~O)(~O)~O *N(~O)(~O)~O 38: smi match: *[N+](=C)[O-] *[N+](=C)[O-] 38: smi match: * * 38: smi match: *C(*)NCN(*)* *C(*)NCN(*)* 38: smi match: *OCC#N *OCC#N 38: smi match: **C=C **C=C 38: smi match: C=C[O-] C=C[O-] 38: smi match: C=CO C=CO 38: smi match: * * 38: smi match: O=CON1C(=O)CCC1=O O=CON1C(=O)CCC1=O 38: smi match: O=COn1ccnc1 O=COn1ccnc1 38: smi match: O=COc1c(F)c(F)c(F)c(F)c1F O=COc1c(F)c(F)c(F)c(F)c1F 38: smi match: CC(C)(C)S CC(C)(C)S 38: smi match: [CH2][CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~C [CH2][CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~C 38: smi match: [CH]=O [CH]=O 38: smi match: C~[CH2]~[CH2]~[CH2]~[CH2]~[CH2]~C C~[CH2]~[CH2]~[CH2]~[CH2]~[CH2]~C 38: smi match: SS SS 38: smi match: [SH] [SH] 38: smi match: *C* *C* 38: smi match: * * 38: smi match: C[nH3+] C[nH3+] 38: smi match: cC(=N)[NH2] cC(=N)[NH2] 38: smi match: O=CN[OH] O=CN[OH] 38: smi match: NN NN 38: smi match: * * 38: smi match: *OP(=O)O* *OP(=O)O* 38: smi match: * * 38: smi match: * * 38: smi match: * * 30: ......[05:15:46] Molecule does not have explicit Hs. Consider calling AddHs() 38: smi match: *N=C(*)* *N=C(*)* 38: smi match: *C(*)(*)C=O *C(*)(*)C=O 38: smi match: CSC=O CSC=O 38: smi match: * * 38: smi match: O=CCl O=CCl 38: smi match: *** *** 38: smi match: *C=O *C=O 38: smi match: C[OH] C[OH] 38: smi match: C[OH] C[OH] 38: smi match: C[OH] C[OH] 38: smi match: C[OH] C[OH] 38: smi match: C[CH]=O C[CH]=O 38: smi match: *=* *=* 38: smi match: *C *C 38: smi match: C#C C#C 38: smi match: *[CH]C=C *[CH]C=C 38: smi match: cCC(=O)[OH] cCC(=O)[OH] 38: smi match: *C(*)(*)C(=O)[OH] *C(*)(*)C(=O)[OH] 38: smi match: CC(=O)C(=O)[OH] CC(=O)C(=O)[OH] 38: smi match: C=CC(=O)[OH] C=CC(=O)[OH] 38: smi match: N#CC(=O)[OH] N#CC(=O)[OH] 38: smi match: O=C([OH])CN(~O)~O O=C([OH])CN(~O)~O 38: smi match: *N(*)C*=O *N(*)C*=O 38: smi match: O=*C[OH] O=*C[OH] 38: smi match: *=C*=O *=C*=O 38: smi match: *=CC#N *=CC#N 38: smi match: *C[OH] *C[OH] 38: smi match: ** ** 38: smi match: *C[OH] *C[OH] 38: smi match: *C(*)=O *C(*)=O 38: smi match: * * 38: smi match: *CC(=O)[OH] *CC(=O)[OH] 38: smi match: CC(=O)OC(C)=O CC(=O)OC(C)=O 38: smi match: *c *c 38: smi match: CN(C)c CN(C)c 38: smi match: c c 38: smi match: *c *c 38: smi match: *c *c 38: smi match: **:*cF **:*cF 38: smi match: cB([OH])[OH] cB([OH])[OH] 38: smi match: N~N~N N~N~N 38: smi match: *N=N* *N=N* 38: smi match: *CC[OH] *CC[OH] 38: smi match: *CC[OH] *CC[OH] 38: smi match: *=CCC(=O)[OH] *=CCC(=O)[OH] 38: smi match: O=C([OH])CC[OH] O=C([OH])CC[OH] 38: smi match: *CCC(=O)[OH] *CCC(=O)[OH] 38: smi match: CC(=O)CC(=O)[OH] CC(=O)CC(=O)[OH] 38: smi match: *OC(=O)CC(C)=O *OC(=O)CC(C)=O 38: smi match: *OC(*)=O *OC(*)=O 38: smi match: *C(=O)[OH] *C(=O)[OH] 38: smi match: O=C[OH] O=C[OH] 38: smi match: *OC(=O)O* *OC(=O)O* 38: smi match: * * 38: smi match: *OC(=O)Cl *OC(=O)Cl 38: smi match: *C#N *C#N 38: smi match: NCC(=O)NCC=O NCC(=O)NCC=O 38: smi match: SS SS 38: smi match: * * 38: smi match: *=* *=* 38: smi match: *=* *=* 38: smi match: *=* *=* 38: smi match: *=* *=* 38: smi match: C1CO1 C1CO1 38: smi match: *OC(*)=O *OC(*)=O 38: smi match: * * 38: smi match: *O*[OH] *O*[OH] 38: smi match: COC(C)(C)O COC(C)(C)O 38: smi match: *[OH] *[OH] 38: smi match: ** ** 38: smi match: C=N[NH2] C=N[NH2] 38: smi match: C=NC=O C=NC=O 38: smi match: * * 38: smi match: C#NC C#NC 38: smi match: CN=C=O CN=C=O 38: smi match: CN=C=S CN=C=S 38: smi match: *OC(*)(*)O* *OC(*)(*)O* 38: smi match: *C(*)=O *C(*)=O 38: smi match: C~C~C~C~C~C~C C~C~C~C~C~C~C 38: smi match: *~*=O *~*=O 38: smi match: *~*=O *~*=O 38: smi match: OC(=O)CC(=O)[OH] OC(=O)CC(=O)[OH] 38: smi match: * * 38: smi match: *C#N *C#N 38: smi match: *N(=O)~O *N(=O)~O 38: smi match: N N 38: smi match: OC(=O)C(O)=O OC(=O)C(O)=O 38: smi match: C=NO C=NO 38: smi match: O~O O~O 38: smi match: c[OH] c[OH] 38: smi match: O=P(~[OH])~O O=P(~[OH])~O 38: smi match: CO~P(=O)~O CO~P(=O)~O 38: smi match: O=P(~[OH])(~O)~O O=P(~[OH])(~O)~O 38: smi match: CO~P(=O)(~O)~O CO~P(=O)(~O)~O 38: smi match: O=P(~O)~O O=P(~O)~O 38: smi match: O=P(~O)(~O)~O O=P(~O)(~O)~O 38: smi match: C[NH2] C[NH2] 38: smi match: O~*1~**~*(~O)~**~1 O~*1~**~*(~O)~**~1 38: smi match: * * 38: smi match: *1~*~*~C2~C(~*~1)~*~*~C1~C3~*~*~*~C~3~*~*~C~2~1 *1~*~*~C2~C(~*~1)~*~*~C1~C3~*~*~*~C~3~*~*~C~2~1 38: smi match: CS(C)~O CS(C)~O 38: smi match: CS(C)(~O)~O CS(C)(~O)~O 38: smi match: CS(N)(~O)~O CS(N)(~O)~O 38: smi match: CS([OH])(~O)~O CS([OH])(~O)~O 38: smi match: COS(C)(~O)~O COS(C)(~O)~O 38: smi match: *S(C)(~O)~O *S(C)(~O)~O 38: smi match: CN(C)C CN(C)C 38: smi match: *c1nnc(=N)s1 *c1nnc(=N)s1 38: smi match: *C(*)=S *C(*)=S 38: smi match: *OC(*)=S *OC(*)=S 38: smi match: * * 38: smi match: C[SH] C[SH] 38: smi match: c[SH] c[SH] 38: smi match: NC(N)=S NC(N)=S 38: smi match: * * 38: smi match: ***** ***** 38: smi match: NC(N)=O NC(N)=O 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing sf.net issue 280. 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing sf.net issue 285. 38: [05:15:46] done 38: [05:15:46] done 38: [05:15:46] done 38: [05:15:46] done 38: [05:15:46] done 38: [05:15:46] done 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing Github2441: Add RDProps interface to Conformers. 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing Issue2510: Pickle Confs as double. 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing Github #2465: Negative atom-map numbers cause depickling to fail. 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing loading pickled mols with conformers 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing conformer reading/writing options 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing property reading options 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing property reading options 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing boost::serialization integration 38: [05:15:46] done 38: [05:15:46] ------------------------------------- 38: [05:15:46] Testing github issue 6036 34/246 Test #38: graphmoltestPickler .................... Passed 0.31 sec test 42 Start 42: graphmolMemTest1 42: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolMemTest1 42: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 42: Test timeout computed to be: 7200 35/246 Test #42: graphmolMemTest1 ....................... Passed 0.02 sec test 43 Start 43: resMolSupplierTest 43: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/resMolSupplierTest 43: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 43: Test timeout computed to be: 7200 41: [05:15:46] sorting (hanoi sort) vectors 30: ... 30: ---------------------------------------------------------------------- 30: Ran 12 tests in 0.598s 30: 30: OK 36: [05:15:46] Maximum BFS search size exceeded. 36: This is likely due to a highly symmetric fused ring system. 36/246 Test #30: pyForceFieldConstraints ................ Passed 1.15 sec test 44 Start 44: molBundleTest 44: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/molBundleTest 44: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 44: Test timeout computed to be: 7200 37/246 Test #44: molBundleTest .......................... Passed 0.03 sec test 45 Start 45: testSGroup 45: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/testSGroup 45: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 45: Test timeout computed to be: 7200 38/246 Test #45: testSGroup ............................. Passed 0.06 sec test 46 Start 46: test-valgrind 46: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/test-valgrind 46: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 46: Test timeout computed to be: 7200 39/246 Test #46: test-valgrind .......................... Passed 0.03 sec test 47 Start 47: graphmolTestsCatch 47: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 47: Test timeout computed to be: 7200 47: Randomness seeded to: 1870069922 47: [05:15:46] WARNING: not removing hydrogen atom without neighbors 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] Explicit valence for atom # 1 N, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 N, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 N, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 N, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 2 O, 3, is greater than permitted 47: [05:15:46] Explicit valence for atom # 2 O, 3, is greater than permitted 47: [05:15:46] non-ring atom 2 marked aromatic 47: [05:15:46] non-ring atom 2 marked aromatic 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 1 2 3 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 1 2 3 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 47: [05:15:46] Explicit valence for atom # 1 O, 3, is greater than permitted 47: [05:15:46] Explicit valence for atom # 4 F, 2, is greater than permitted 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 6 7 8 47: [05:15:46] Explicit valence for atom # 1 C, 5, is greater than permitted 47: [05:15:46] WARNING: not removing hydrogen atom with dummy atom neighbors 47: [05:15:46] WARNING: not removing hydrogen atom with dummy atom neighbors 47: [05:15:46] WARNING: not removing hydrogen atom with wedged bond 47: [05:15:46] WARNING: not removing hydrogen atom without neighbors 47: [05:15:46] WARNING: not removing hydrogen atom without neighbors 47: [05:15:46] WARNING: not removing hydrogen atom without neighbors 47: [05:15:46] WARNING: not removing hydrogen atom without neighbors 47: [05:15:46] Unreasonable formal charge on atom # 0. 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: no atom 47: Violation occurred on line 181 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: at 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C1D8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: no owner 47: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 47: Failed Expression: dp_mol 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C250 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: atom not associated with this molecule 47: Violation occurred on line 182 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: &at->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: no atom 47: Violation occurred on line 364 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: at 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C3A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: no owner 47: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 47: Failed Expression: dp_mol 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C41C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: atom not associated with this molecule 47: Violation occurred on line 365 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: &at->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C4A4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: no atom 47: Violation occurred on line 371 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: at 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54CB54 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: no owner 47: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 47: Failed Expression: dp_mol 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C5DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: atom not associated with this molecule 47: Violation occurred on line 372 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: &at->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C664 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: null atom passed in 47: Violation occurred on line 386 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: atom_pin 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::addAtom(RDKit::Atom*, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54CB38 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: cannot take ownership of an atom which already has an owner 47: Violation occurred on line 387 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: !takeOwnership || !atom_pin->hasOwningMol() || &atom_pin->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::addAtom(RDKit::Atom*, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54C7D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: cannot take ownership of an bond which already has an owner 47: Violation occurred on line 412 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: !takeOwnership || !bond_pin->hasOwningMol() || &bond_pin->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::addBond(RDKit::Bond*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF54CB18 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] WARNING: not removing hydrogen atom without neighbors 47: [05:15:46] Explicit valence for atom # 1 F greater than permitted 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: plain atoms have no Query 47: Violation occurred on line 697 in file ./Code/GraphMol/Atom.cpp 47: Failed Expression: 0 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::Atom::setQuery(Queries::Query*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF50030C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: plain atoms have no Query 47: Violation occurred on line 702 in file ./Code/GraphMol/Atom.cpp 47: Failed Expression: 0 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::Atom::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF500398 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: plain bonds have no Query 47: Violation occurred on line 209 in file ./Code/GraphMol/Bond.cpp 47: Failed Expression: 0 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::Bond::setQuery(Queries::Query*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF4FFF6C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] 47: 47: **** 47: Pre-condition Violation 47: plain bonds have no query 47: Violation occurred on line 230 in file ./Code/GraphMol/Bond.cpp 47: Failed Expression: 0 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::Bond::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000AAAAAF4FFFF8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x0000AAAAAF59C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000AAAAAF59CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000AAAAAF59D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000AAAAAF570818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x0000AAAAAF570D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x0000AAAAAF4EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000FFFFB950255C in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 47: 12# 0x0000AAAAAF4EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [05:15:46] Unusual charge on atom 0 number of radical electrons set to zero 47: [05:15:46] Unusual charge on atom 0 number of radical electrons set to zero 47: [05:15:46] Unusual charge on atom 0 number of radical electrons set to zero 47: [05:15:46] non-ring atom 0 marked aromatic 47: [05:15:46] non-ring atom 0 marked aromatic 47: [05:15:46] Explicit valence for atom # 1 C, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 9 C, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 3 N, 4, is greater than permitted 47: [05:15:46] Explicit valence for atom # 15 C, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 11 C, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 9 C, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 9 C, 5, is greater than permitted 47: [05:15:46] Explicit valence for atom # 9 C, 6, is greater than permitted 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 7 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 3 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 3 7 47: [05:15:46] Can't kekulize mol. Unkekulized atoms: 3 7 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [05:15:46] Explicit valence for atom # 1 O, 3, is greater than permitted 47: [05:15:46] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 47: [05:15:46] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 47: [05:15:46] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [05:15:46] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [05:15:46] Invalid value for molAttachPoint: 4 on atom 1. Not expanding this atttachment point. 47: [05:15:46] Invalid value for _fromAttachPoint: -1 on atom 0. Not collapsing this atom 47: [05:15:46] Invalid value for _fromAttachPoint: 4 on atom 0. Not collapsing this atom 47: [05:15:46] non-ring atom 0 marked aromatic 47: [05:15:46] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [05:15:46] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [05:15:46] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [05:15:46] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [05:15:46] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [05:15:46] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 47: [05:15:46] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 47: [05:15:46] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [05:15:46] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [05:15:46] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [05:15:46] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [05:15:46] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [05:15:46] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [05:15:46] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [05:15:46] Explicit valence for atom # 0 Al, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 Al, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 Si, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 Si, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 P, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 P, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 P, 7, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 P, 7, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 As, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 As, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 As, 7, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 As, 7, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 Sb, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 Sb, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 Sb, 7, is greater than permitted 47: [05:15:46] Explicit valence for atom # 0 Sb, 7, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 Bi, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 Bi, 6, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 Bi, 8, is greater than permitted 47: [05:15:46] Explicit valence for atom # 1 Bi, 8, is greater than permitted 47: =============================================================================== 47: All tests passed (4501 assertions in 110 test cases) 47: 40/246 Test #47: graphmolTestsCatch ..................... Passed 0.34 sec test 48 Start 48: graphmolOrganometallicsCatch 48: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolOrganometallicsCatch 48: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 48: Test timeout computed to be: 7200 48: Randomness seeded to: 1821643358 48: =============================================================================== 48: All tests passed (62 assertions in 6 test cases) 48: 41/246 Test #48: graphmolOrganometallicsCatch ........... Passed 0.06 sec test 49 Start 49: graphmolSGroupCatch 49: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolSGroupCatch 49: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 49: Test timeout computed to be: 7200 36: [05:15:47] Maximum BFS search size exceeded. 36: This is likely due to a highly symmetric fused ring system. 49: Randomness seeded to: 3821818412 49: =============================================================================== 49: All tests passed (136 assertions in 8 test cases) 49: 42/246 Test #49: graphmolSGroupCatch .................... Passed 0.04 sec test 50 Start 50: graphmolAdjustQueryCatch 50: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolAdjustQueryCatch 50: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 50: Test timeout computed to be: 7200 36: F/C=C/Cl 36: [H]/C(F)=C(/[H])Cl 36: F/C=C/Cl 36: F/C=C/Cl 36: C/C(F)=C(/C)Cl 36: [05:15:47] ----------------------- 36: Testing isRingFused 43/246 Test #36: graphmolMolOpsTest ..................... Passed 1.42 sec test 51 Start 51: chiralityTestsCatch 51: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/chiralityTestsCatch 51: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 51: Test timeout computed to be: 7200 50: Randomness seeded to: 2167276871 50: =============================================================================== 50: All tests passed (332 assertions in 12 test cases) 50: 44/246 Test #50: graphmolAdjustQueryCatch ............... Passed 0.08 sec test 52 Start 52: canonTestsCatch 52: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/canonTestsCatch 52: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 52: Test timeout computed to be: 7200 51: Randomness seeded to: 1027297383 51: [05:15:47] unable to set wavy bonds for double bonds: 3 51: [05:15:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 51: [05:15:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 51: [05:15:47] Warning: ambiguous stereochemistry - zero-length (or near zero-length) bond - at atom 1 ignored. 51: [05:15:47] Warning: ambiguous stereochemistry - zero-length (or near zero-length) bond - at atom 1 ignored. 51: [05:15:47] Warning: ambiguous stereochemistry - overlapping neighbors - at atom 2 ignored 51: =============================================================================== 51: All tests passed (2350 assertions in 81 test cases) 51: 45/246 Test #51: chiralityTestsCatch .................... Passed 0.13 sec test 53 Start 53: moliteratorTestsCatch 53: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/moliteratorTestsCatch 53: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 53: Test timeout computed to be: 7200 53: Randomness seeded to: 1959864880 53: =============================================================================== 53: All tests passed (14 assertions in 4 test cases) 53: 46/246 Test #53: moliteratorTestsCatch .................. Passed 0.03 sec test 54 Start 54: queryTestsCatch 54: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/queryTestsCatch 54: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 54: Test timeout computed to be: 7200 54: Randomness seeded to: 4219784500 54: =============================================================================== 54: All tests passed (10 assertions in 1 test case) 54: 47/246 Test #54: queryTestsCatch ........................ Passed 0.03 sec test 55 Start 55: molbundleTestsCatch 55: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/molbundleTestsCatch 55: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 55: Test timeout computed to be: 7200 55: Randomness seeded to: 2553596535 55: =============================================================================== 55: All tests passed (6 assertions in 1 test case) 55: 48/246 Test #55: molbundleTestsCatch .................... Passed 0.03 sec test 56 Start 56: pickleTestsCatch 56: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/pickleTestsCatch 56: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 56: Test timeout computed to be: 7200 56: Randomness seeded to: 3193109605 56: =============================================================================== 56: All tests passed (45 assertions in 4 test cases) 56: 49/246 Test #56: pickleTestsCatch ....................... Passed 0.05 sec test 57 Start 57: tableTestsCatch 57: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/tableTestsCatch 57: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 57: Test timeout computed to be: 7200 57: Randomness seeded to: 3023846799 57: =============================================================================== 57: All tests passed (7 assertions in 2 test cases) 57: 50/246 Test #57: tableTestsCatch ........................ Passed 0.03 sec test 58 Start 58: molopsTestsCatch 58: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/molopsTestsCatch 58: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 58: Test timeout computed to be: 7200 29: Checking against /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 58: Randomness seeded to: 2829203653 58: =============================================================================== 58: All tests passed (230 assertions in 7 test cases) 58: 51/246 Test #58: molopsTestsCatch ....................... Passed 0.05 sec test 59 Start 59: smiTest1 59: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTest1 59: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 59: Test timeout computed to be: 7200 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] WARNING: not removing hydrogen atom without neighbors 59: [05:15:47] Invalid chiral specification on atom 0 59: [05:15:47] Invalid chiral specification on atom 0 59: [05:15:47] Invalid chiral specification on atom 0 59: [05:15:47] Invalid chiral specification on atom 0 59: [05:15:47] Invalid chiral specification on atom 0 59: [05:15:47] SMILES Parse Error: unclosed ring for input: 'C1.C11.C' 59: [05:15:47] SMILES Parse Error: unclosed ring for input: 'C1C.CC11CCC' 29: All 191 tests passed 59: --C1CCC2(CC1)CCCCC2CCC1CCCC1 59: smi: ClC1CCCCC1 59: smi: ClC1CCCCC1 59: smi: ClC1CCCCC1Br 59: smi: c1ccccc1 59: smi: c1ccncc1 59: smi: c1cc[nH]c1 59: smi: c1cc[nH]c1 59: smi: c1cc[pH]c1 59: [05:15:47] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 59: [05:15:47] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 59: CbC(aC)aC 59: CaC(bC)aC 59: CbC(bC)aC 59: O.C 59: C=C1CC[C@@H]2O[C@@]2(C)CC[C@@](N)(C(C)C)C=C[C@](C)(O)CC[C@@H]1O C=C1CC[C@@H]2O[C@@]2(C)CC[C@@](N)(C(C)C)C=C[C@](C)(O)CC[C@@H]1O 59: [05:15:47] SMILES Parse Error: syntax error while parsing: c%()ccccc%() 59: [05:15:47] SMILES Parse Error: check for mistakes around position 4: 59: [05:15:47] c%()ccccc%() 59: [05:15:47] ~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'c%()ccccc%()' for input: 'c%()ccccc%()' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 59: [05:15:47] SMILES Parse Error: check for mistakes around position 9: 59: [05:15:47] c%(100000)ccccc%(100000) 59: [05:15:47] ~~~~~~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 59: [05:15:47] SMILES Parse Error: duplicated ring closure 1 bonds atom 2 to itself for input: 'C1CC111' 59: [05:15:47] SMILES Parse Error: ring closure 1 duplicates bond between atom 0 and atom 1 for input: 'C1C1' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 59: [05:15:47] SMILES Parse Error: check for mistakes around position 14: 59: [05:15:47] COc(c1)cccc1C# 59: [05:15:47] ~~~~~~~~~~~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 14: 59: [05:15:47] COc(c1)cccc1C# 59: [05:15:47] ~~~~~~~~~~~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 59: [05:15:47] SMILES Parse Error: check for mistakes around position 14: 59: [05:15:47] COc(c1)cccc1C# 59: [05:15:47] ~~~~~~~~~~~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 14: 59: [05:15:47] COc(c1)cccc1C# 59: [05:15:47] ~~~~~~~~~~~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 59: [05:15:47] SMILES Parse Error: check for mistakes around position 14: 59: [05:15:47] COc(c1)cccc1C# 59: [05:15:47] ~~~~~~~~~~~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 14: 59: [05:15:47] COc(c1)cccc1C# 59: [05:15:47] ~~~~~~~~~~~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 59: C=c1s/c2n(c1=O)CCCCCCC\N=2 59: C1=C\C/C=C2C3=C\C/C=C\C=C/C/3C\2\C=C/1 59: [05:15:47] SMILES Parse Error: extra close parentheses while parsing: C) 59: [05:15:47] SMILES Parse Error: check for mistakes around position 2: 59: [05:15:47] C) 59: [05:15:47] ~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'C)' for input: 'C)' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: CC=(CO)C 59: [05:15:47] SMILES Parse Error: check for mistakes around position 4: 59: [05:15:47] CC=(CO)C 59: [05:15:47] ~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'CC=(CO)C' for input: 'CC=(CO)C' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: CC=(CO)C 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 4: 59: [05:15:47] CC=(CO)C 59: [05:15:47] ~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'CC=(CO)C' for input: 'CC=(CO)C' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: baz 59: [05:15:47] SMILES Parse Error: check for mistakes around position 2: 59: [05:15:47] baz 59: [05:15:47] ~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'baz' for input: 'baz' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: baz 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 3: 59: [05:15:47] baz 59: [05:15:47] ~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'baz' for input: 'baz' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: fff 59: [05:15:47] SMILES Parse Error: check for mistakes around position 1: 59: [05:15:47] fff 59: [05:15:47] ^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'fff' for input: 'fff' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: fff 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 1: 59: [05:15:47] fff 59: [05:15:47] ^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'fff' for input: 'fff' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: C+0 59: [05:15:47] SMILES Parse Error: check for mistakes around position 2: 59: [05:15:47] C+0 59: [05:15:47] ~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'C+0' for input: 'C+0' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: C+0 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 2: 59: [05:15:47] C+0 59: [05:15:47] ~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'C+0' for input: 'C+0' 59: [05:15:47] SMILES Parse Error: number too large while parsing: [555555555555555555C] 59: [05:15:47] SMILES Parse Error: check for mistakes around position 11: 59: [05:15:47] [555555555555555555C] 59: [05:15:47] ~~~~~~~~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES '[555555555555555555C]' for input: '[555555555555555555C]' 59: [05:15:47] SMARTS Parse Error: number too large while parsing: [555555555555555555C] 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 11: 59: [05:15:47] [555555555555555555C] 59: [05:15:47] ~~~~~~~~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS '[555555555555555555C]' for input: '[555555555555555555C]' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: [Fe@TD] 59: [05:15:47] SMILES Parse Error: check for mistakes around position 5: 59: [05:15:47] [Fe@TD] 59: [05:15:47] ~~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES '[Fe@TD]' for input: '[Fe@TD]' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: [Fe@TD] 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 5: 59: [05:15:47] [Fe@TD] 59: [05:15:47] ~~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS '[Fe@TD]' for input: '[Fe@TD]' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: c%()ccccc%() 59: [05:15:47] SMILES Parse Error: check for mistakes around position 4: 59: [05:15:47] c%()ccccc%() 59: [05:15:47] ~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'c%()ccccc%()' for input: 'c%()ccccc%()' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: c%()ccccc%() 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 4: 59: [05:15:47] c%()ccccc%() 59: [05:15:47] ~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'c%()ccccc%()' for input: 'c%()ccccc%()' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 59: [05:15:47] SMILES Parse Error: check for mistakes around position 9: 59: [05:15:47] c%(100000)ccccc%(100000) 59: [05:15:47] ~~~~~~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 9: 59: [05:15:47] c%(100000)ccccc%(100000) 59: [05:15:47] ~~~~~~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 59: [05:15:47] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 59: [05:15:47] SMILES Parse Error: check for mistakes around position 14: 59: [05:15:47] COc(c1)cccc1C# 59: [05:15:47] ~~~~~~~~~~~~~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 14: 59: [05:15:47] COc(c1)cccc1C# 59: [05:15:47] ~~~~~~~~~~~~~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 59: [05:15:47] SMILES Parse Error: extra close parentheses while parsing: C) 59: [05:15:47] SMILES Parse Error: check for mistakes around position 2: 59: [05:15:47] C) 59: [05:15:47] ~^ 59: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'C)' for input: 'C)' 59: [05:15:47] SMARTS Parse Error: syntax error while parsing: C) 59: [05:15:47] SMARTS Parse Error: check for mistakes around position 2: 59: [05:15:47] C) 59: [05:15:47] ~^ 59: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'C)' for input: 'C)' 52/246 Test #59: smiTest1 ............................... Passed 0.22 sec test 60 Start 60: smiTest2 60: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTest2 60: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 60: Test timeout computed to be: 7200 60: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'CO' for input: 'CO' 60: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'C-O' for input: 'C-O' 60: [05:15:47] SMILES Parse Error: syntax error while parsing: - 60: [05:15:47] SMILES Parse Error: check for mistakes around position 1: 60: [05:15:47] - 60: [05:15:47] ^ 60: [05:15:47] SMILES Parse Error: Failed parsing SMILES '-' for input: '-' 60: [05:15:47] SMILES Parse Error: Failed parsing SMILES '[Bg]' for input: '[Bg]' 60: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'C' for input: 'C' 60: [05:15:47] SMILES Parse Error: Failed parsing SMILES 'C-O' for input: 'C-O' 60: [05:15:47] SMILES Parse Error: Failed parsing SMILES '*' for input: '*' 60: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'CO' for input: 'CO' 60: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'C-O' for input: 'C-O' 60: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS '-' for input: '-' 60: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS '[Bg]' for input: '[Bg]' 60: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS 'C' for input: 'C' 60: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS '-O' for input: '-O' 60: [05:15:47] SMARTS Parse Error: Failed parsing SMARTS '*' for input: '*' 53/246 Test #60: smiTest2 ............................... Passed 0.02 sec test 61 Start 61: cxsmilesTest 61: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/cxsmilesTest 61: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 61: Test timeout computed to be: 7200 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_hypervalent.sdf... 61: Randomness seeded to: 390761319 61: Test 61: 61: ShortAtropisomerNoCoords.cxsmi 61: 61: Test 61: 61: ShortAtropisomer.cxsmi 61: 61: Test 61: 61: ShortAtropisomerArom.cxsmi 61: 61: Test 61: 61: AtropManyChirals.cxsmi 61: 61: Test 61: 61: AtropManyChiralsEnhanced.cxsmi 61: 61: Test 61: 61: AtropManyChiralsEnhanced2.cxsmi 61: 61: Test 61: 61: AtropManyChiralsEnhanced3.cxsmi 61: 61: Test 61: 61: AtropManyChiralsEnhanced4.cxsmi 61: 61: Test 61: 61: BMS-986142_3d_chiral.cxsmi 61: 61: Test 61: 61: BMS-986142_3d.cxsmi 61: 61: Test 61: 61: BMS-986142_atrop1.cxsmi 61: 61: Test 61: 61: BMS-986142_atrop2.cxsmi 61: 61: Test 61: 61: BMS-986142_atrop3.cxsmi 61: 61: Test 61: 61: BMS-986142_atrop4.cxsmi 61: 61: Test 61: 61: BMS-986142_atrop5.cxsmi 61: 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:47] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: Test 61: 61: BMS-986142_atrop6.cxsmi 61: 61: Test 61: 61: BMS-986142_atropBad1.cxsmi 61: 61: [05:15:47] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 61: [05:15:47] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 61: [05:15:47] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 61: [05:15:47] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 61: [05:15:47] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 61: Test 61: 61: BMS-986142_atropBad2.cxsmi 61: 61: [05:15:47] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 61: [05:15:47] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 61: [05:15:47] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 61: [05:15:47] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 61: [05:15:47] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 12: .................. 12: ---------------------------------------------------------------------- 12: Ran 18 tests in 2.891s 12: 12: OK 61: Test 61: 61: JDQ443_3d.cxsmi 61: 61: Test 61: 61: JDQ443_atrop1.cxsmi 61: 61: Test 61: 61: JDQ443_atrop2.cxsmi 61: 61: Test 61: 61: JDQ443_atrop3.cxsmi 61: 61: Test 61: 61: JDQ443_atrop4.cxsmi 61: 61: Test 61: 61: JDQ443_atropBad1.cxsmi 61: 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 61: Test 61: 61: RP-6306_atrop1.cxsmi 61: 61: Test 61: 61: RP-6306_atrop2.cxsmi 61: 61: Test 61: 61: RP-6306_atrop3.cxsmi 61: 61: Test 61: 61: RP-6306_atrop4.cxsmi 61: 61: Test 61: 61: RP-6306_atrop5.cxsmi 61: 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 61: Test 61: 61: RP-6306_atrop6.cxsmi 61: 61: Test 61: 61: RP-6306_atropBad1.cxsmi 61: 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 61: Test 61: 61: RP-6306_atropBad2.cxsmi 61: 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 54/246 Test #12: pyBV ................................... Passed 3.36 sec test 62 Start 62: smaTest1 62: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smaTest1 62: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 62: Test timeout computed to be: 7200 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 61: Test 61: 61: RP-6306_3d.cxsmi 61: 61: Test 61: 61: Sotorasib_atrop1.cxsmi 61: 61: Test 61: 61: Sotorasib_atrop2.cxsmi 61: 61: Test 61: 61: Sotorasib_atrop3.cxsmi 61: 61: Test 61: 61: Sotorasib_atrop4.cxsmi 61: 61: Test 61: 61: Sotorasib_atrop5.cxsmi 61: 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: [05:15:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 61: Test 61: 61: Sotorasib_atropBad1.cxsmi 61: 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 61: Test 61: 61: Sotorasib_atropBad2.cxsmi 61: 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 61: [05:15:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 62: [05:15:48] SMARTS Parse Error: syntax error while parsing: [C:10H3]CC 62: [05:15:48] SMARTS Parse Error: check for mistakes around position 6: 62: [05:15:48] [C:10H3]CC 62: [05:15:48] ~~~~~^ 62: [05:15:48] SMARTS Parse Error: Failed parsing SMARTS '[C:10H3]CC' for input: '[C:10H3]CC' 62: [05:15:48] SMARTS Parse Error: syntax error while parsing: [C:10:3]ON 62: [05:15:48] SMARTS Parse Error: check for mistakes around position 6: 62: [05:15:48] [C:10:3]ON 62: [05:15:48] ~~~~~^ 62: [05:15:48] SMARTS Parse Error: Failed parsing SMARTS '[C:10:3]ON' for input: '[C:10:3]ON' 62: [05:15:48] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 62: [05:15:48] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 55/246 Test #62: smaTest1 ............................... Passed 0.14 sec test 63 Start 63: smiTestCatch 63: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 63: Test timeout computed to be: 7200 61: Test 61: 61: Sotorasib_3d.cxsmi 61: 61: Test 61: 61: ZM374979_atrop1.cxsmi 61: 61: Test 61: 61: ZM374979_atrop2.cxsmi 61: 61: Test 61: 61: ZM374979_atrop3.cxsmi 61: 61: Test 61: 61: ZM374979_atrop4.cxsmi 61: 61: Test 61: 61: ZM374979_atropBad1.cxsmi 61: 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 63: Randomness seeded to: 1221823963 63: [05:15:48] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 63: [05:15:48] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 63: [05:15:48] SMARTS Parse Error: unclosed ring for input: 'c1ccccc' 63: [05:15:48] SMARTS Parse Error: unclosed ring for input: 'C1C' 63: [05:15:48] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 63: [05:15:48] SMARTS Parse Error: syntax error while parsing: C)foo 63: [05:15:48] SMARTS Parse Error: check for mistakes around position 2: 63: [05:15:48] C)foo 63: [05:15:48] ~^ 63: [05:15:48] SMARTS Parse Error: Failed parsing SMARTS 'C)foo' for input: 'C)foo' 63: [05:15:48] SMARTS Parse Error: syntax error while parsing: CCC |$foo;;bar$| 63: [05:15:48] SMARTS Parse Error: check for mistakes around position 4: 63: [05:15:48] CCC |$foo;;bar$| 63: [05:15:48] ~~~^ 63: [05:15:48] SMARTS Parse Error: Failed parsing SMARTS 'CCC |$foo;;bar$|' for input: 'CCC |$foo;;bar$|' 63: [05:15:48] unrecognized CXSMILES CONNECT value: 'EU'. Assuming 'eu' 61: Test 61: 61: Mrtx1719_3d.cxsmi 61: 61: Test 61: 61: Mrtx1719_atrop1.cxsmi 61: 61: Test 61: 61: Mrtx1719_atrop2.cxsmi 61: 61: Test 61: 61: Mrtx1719_atrop3.cxsmi 61: 61: Test 61: 61: Mrtx1719_atrop4.cxsmi 61: 61: Test 61: 61: Mrtx1719_atropBad1.cxsmi 61: 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 61: [05:15:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 63: [05:15:48] w block attempts to set wedging on bond 0 more than once. 63: [05:15:48] improperly formatted w block 63: [05:15:48] atom 3 is not associated with bond 1(1-2) in w block 41: [05:15:48] done: 500000 41: [05:15:48] Done 41: [05:15:48] Testing hanoi with a functor. 41: [05:15:48] Done 41: [05:15:48] Testing basic partition refinement. 41: [05:15:48] Done 41: [05:15:48] Testing partition refinement with neighbors. 41: [05:15:48] Done 41: [05:15:48] testing canonicalization via tie breaking. 41: [05:15:48] Done 41: [05:15:48] testing canonicalization using the wrapper. 41: [05:15:48] Done 41: [05:15:48] testing some specific ordering problems 41: [05:15:48] Finished 41: [05:15:48] testing chiral invariants. 41: [05:15:48] Finished 41: [05:15:48] testing unique ranks in w.r.t. renumbering. 41: [05:15:48] Finished 41: [05:15:48] testing mol fragments. 41: [05:15:48] Finished 41: [05:15:48] testing protein round-tripping. 61: Test 61: 61: AtropCanon1.cxsmi 61: 61: Test 61: 61: AtropCanon2.cxsmi 61: 61: Test 61: 61: AtropCanon3.cxsmi 61: 61: Test 61: 61: BMS-986142_3d_chiral.cxsmi 61: 61: Test 61: 61: BMS-986142_3d.cxsmi 61: 61: =============================================================================== 61: All tests passed (2500 assertions in 32 test cases) 61: 56/246 Test #61: cxsmilesTest ........................... Passed 1.46 sec test 64 Start 64: nontetrahedralCatch 64: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/nontetrahedralCatch 64: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 64: Test timeout computed to be: 7200 64: Randomness seeded to: 1352682742 64: [05:15:49] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 64: [05:15:49] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 64: [05:15:49] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 64: [05:15:49] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 64: [05:15:49] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 64: [05:15:49] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 64: [05:15:49] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 64: [05:15:49] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 64: [05:15:49] ignoring non-tetrahedral stereo specification since setAllowNontetrahedralChirality() is false. 64: =============================================================================== 64: All tests passed (308 assertions in 9 test cases) 64: 57/246 Test #64: nontetrahedralCatch .................... Passed 0.08 sec test 65 Start 65: v2smiTestCatch 65: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/v2smiTestCatch 65: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 65: Test timeout computed to be: 7200 65: Randomness seeded to: 638070164 65: =============================================================================== 65: All tests passed (14 assertions in 2 test cases) 65: 58/246 Test #65: v2smiTestCatch ......................... Passed 0.04 sec test 66 Start 66: smartsTestCatch 66: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smartsTestCatch 66: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 66: Test timeout computed to be: 7200 66: Randomness seeded to: 3333813203 66: =============================================================================== 66: All tests passed (5 assertions in 1 test case) 66: 59/246 Test #66: smartsTestCatch ........................ Passed 0.05 sec test 67 Start 67: testDepictor 67: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/testDepictor 67: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor 67: Test timeout computed to be: 7200 41: [05:15:49] Finished 41: [05:15:49] testing stability w.r.t. renumbering. 41: [05:15:49] Finished 41: [05:15:49] testing smiles round-tripping. 67: [05:15:49] *********************************************************** 67: [05:15:49] test1 67: [05:15:49] *********************************************************** 67: 67: [05:15:49] *********************************************************** 67: [05:15:49] testCollisions 67: [05:15:49] *********************************************************** 67: 67: [05:15:49] *********************************************************** 67: [05:15:49] testAddHs 67: [05:15:49] *********************************************************** 67: 67: [05:15:49] *********************************************************** 67: [05:15:49] test198 67: [05:15:49] *********************************************************** 67: 67: [05:15:49] *********************************************************** 67: [05:15:49] test2 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] test3 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] test4 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] tempTest 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Issue248 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Queries 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test crashes associated with RemoveHs 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Issue 2091304 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Issue 2821647 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Issue 2948402 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Issue 2995724 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Testing a change of the depictor bond length 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Issue 3122141 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Issue 3135833 67: [05:15:49] Warning: stereochemistry around double bond may be incorrect in depiction. 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Issue 3487469 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test GitHub Issue 8 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test GitHub Issue 78 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test GitHub Issue 910 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test GitHub Issue 1073 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] testConstrainedCoords 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test GitHub Issue 1112: Bad coordinate generation for H2 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test Issue 2303566 67: [05:15:49] *********************************************************** 67: [05:15:49] *********************************************************** 67: [05:15:49] Test GitHub Issue 1286: GenerateDepictionMatching2DStructure isn't matching 2D structure 67: [05:15:49] *********************************************************** 67: [05:15:49] ----------------------- 67: Testing Github issue 1691: Acetylenic hydrogens not given appropriate 2D coordinates 67: [05:15:49] Finished 67: [05:15:49] ----------------------- 67: Testing Github issue 2027: "linear" fragments not canonically oriented 67: [05:15:49] Finished 67: [05:15:49] ----------------------- 67: Test generateDepictionMatching2DStructure with refPattern and matchVect 67: [05:15:49] Finished 67: [05:15:49] ----------------------- 67: Test generateDepictionMatching2DStructure with allowRGroups 67: [05:15:49] Finished 67: [05:15:49] ----------------------- 67: Test generateDepictionMatching2DStructure with allowRGroups 41: [05:15:49] Finished 41: [05:15:49] testing github #1567: Non-canonical result from MolFragmentToSmiles() 41: [05:15:49] Finished 67: [05:15:49] Finished 67: [05:15:49] ----------------------- 67: Test normalize and straighten depiction 60/246 Test #41: hanoiTest .............................. Passed 3.78 sec test 68 Start 68: depictorCatch 68: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/depictorCatch 68: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor 68: Test timeout computed to be: 7200 67: [05:15:49] Finished 67: [05:15:49] ----------------------- 67: Test that ring system templates are valid 67: [05:15:49] Finished 61/246 Test #67: testDepictor ........................... Passed 0.45 sec test 69 Start 69: pyDepictor 69: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/Wrap/testDepictor.py" 69: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap 69: Test timeout computed to be: 7200 62/246 Test #43: resMolSupplierTest ..................... Passed 3.62 sec test 70 Start 70: testMrvToMol 70: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 70: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse 70: Test timeout computed to be: 7200 70: Using new chirality perception 70: Test 70: 70: rxnStereoMarkedCrossed.mrv 70: 70: Test 70: 70: 145323811.mol 70: 70: [05:15:49] unsupported number of radical electrons 5 70: Test 70: 70: NewChiralTest.sdf 70: 70: Test 70: 70: NewChiralTest.sdf 70: 70: Test 70: 70: NewChiralTestNoChiral.sdf 70: 70: Test 70: 70: NewChiralTestNoChiral.sdf 70: 70: Test 70: 70: NewChiralTestAllChiral.sdf 70: 70: Test 70: 70: NewChiralTestAllChiral.sdf 70: 70: Test 70: 70: vendor839.sdf 70: 70: Test 70: 70: ProblemShort.mol 70: 70: [05:15:49] For a MultipleSgroup expansion, the matching orphaned bond was not found 70: The multiple sgroup will be ignored 68: Randomness seeded to: 283452425 68: =============================================================================== 68: All tests passed (1015 assertions in 20 test cases) 68: 63/246 Test #68: depictorCatch .......................... Passed 0.22 sec test 71 Start 71: fileParsersTest1 71: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 71: Test timeout computed to be: 7200 29: Checking against /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 71: *************************************** 71: *************************************** 71: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [05:15:50] bond with order 0 found on line 7. This is not part of the MDL specification. 29: All 191 tests passed 71: [05:15:50] Skipping unrecognized collection type at line 26: MDLV30/HILITE BONDS=(1 7) 71: [05:15:50] Skipping unrecognized collection type at line 27: MDLV30/HILITE ATOMS=(1 7) 71: [05:15:50] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 71: generating smiles 71: smiles: c12n(C3OC(COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4CO)(=O)S)(=O)S)(=O)S)(S)=O)(S)=O)(=O)S)(=O)S)(S)=O)(=O)S)(S)=O)C(OP(S)(=O)OCC(COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4CO)(=O)S)(=O)S)(=O)S)(S)=O)(S)=O)(=O)S)(=O)S)(S)=O)(=O)S)(S)=O)(S)=O)O)C3O)ccc1c(=O)[nH]c(N)n2 71: converting back 71: check isomorphism 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_dative.smi... 70: Test 70: 70: badWedgeError.sdf 70: 70: Test 70: 70: CrossedDoubleBondWithChiralNbr2.sdf 70: 70: Test 70: 70: CrossedDoubleBondWithChiralNbr.sdf 70: 70: Test 70: 70: SimpleWiggleDoubleBond.sdf 70: 70: Test 70: 70: lostStereoAnd.sdf 70: 70: Test 70: 70: DoubleBondChain.sdf 70: 70: Test 70: 70: UnitsError.sdf 70: 70: Test 70: 70: StarAtom.sdf 70: 70: Test 70: 70: nonProprietary.mol 70: 70: Test 70: 70: ChiralTest.sdf 70: 70: Test 70: 70: TestBond1.mol 70: 70: Test 70: 70: Sgroup_MUL_ParentInMiddle.sdf 70: 70: Test 70: 70: BadRxn.rxn 70: 70: Test 70: 70: FalseChiral.mrv 70: 70: Test 70: 70: FalseChiral.mrv 70: 70: Test 70: 70: Cubane.mrv 70: 70: Test 70: 70: NewChiralTest.mrv 70: 70: Test 70: 70: NewChiralTest.mrv 70: 70: Test 70: 70: NewChiralTestNoChiral.mrv 70: 70: Test 70: 70: NewChiralTestNoChiral.mrv 70: 70: Test 70: 70: NewChiralTestAllChiral.mrv 70: 70: Test 70: 70: NewChiralTestAllChiral.mrv 70: 70: Test 70: 70: DataSgroupMissingUnitsDisplayed.mrv 70: 70: Test 70: 70: lostStereoAnd.mrv 70: 70: Test 70: 70: DoubleBondChain.mrv 70: 70: Test 70: 70: WigglyAndCrossed.mrv 70: 70: Test 70: 70: BondTypes.mrv 70: 70: Test 70: 70: EmbeddedSGroupSUP_MUL.mrv 70: 70: Test 70: 70: EmbeddedSgroupCOP_SUP.mrv 70: 70: Test 70: 70: EmbeddedSgroupDAT_SUP.mrv 70: 70: Test 70: 70: EmbeddedSgroupMULTICENTER_SUP.mrv 70: 70: Test 70: 70: EmbeddedSgroupMUL_MUL.mrv 70: 70: Test 70: 70: EmbeddedSgroupMUL_MUL2.mrv 70: 70: Test 70: 70: EmbeddedSgroupMUL_SUP.mrv 70: 70: Test 70: 70: EmbeddedSgroupSRU_SUP.mrv 70: 70: Test 70: 70: EmbeddedSgroupSUPEXP_SUP.mrv 70: 70: Test 70: 70: EmbeddedSgroupSUPEXP_SUP2.mrv 70: 70: Test 70: 70: EmbeddedSgroupSUP_MULTICENTER.mrv 70: 70: Test 70: 70: EmbeddedSgroupSUP_SUP.mrv 70: 70: Test 70: 70: EmbeddedSgroupSUP_SUP2.mrv 70: 70: Test 70: 70: RgroupBad.mrv 70: 70: Test 70: 70: valenceLessThanDrawn.mrv 70: 70: Test 70: 70: data_sgroup_no_fieldname.mrv 70: 70: Test 70: 70: data_sgroup_empty_field_data.mrv 70: 70: Test 70: 70: radical_value.mrv 70: 70: Test 70: 70: emptyOneLineAtomList.mrv 70: 70: Test 70: 70: mrvValence_value.mrv 70: 70: Test 70: 70: ChiralTest2.mrv 70: 70: Test 70: 70: ChiralTest.mrv 70: 70: Test 70: 70: SnCl2.mrv 70: 70: Test 70: 70: SnH2Cl2.mrv 70: 70: Test 70: 70: marvin01.mrv 70: 70: Test 70: 70: marvin02.mrv 70: 70: Test 70: 70: marvin07.mrv 70: 70: Test 70: 70: marvin10.mrv 70: 70: Test 70: 70: marvin06.mrv 70: 70: Test 70: 70: marvin12.mrv 70: 70: Test 70: 70: EmptyMol.mrv 70: 70: Test 70: 70: Sparse.mrv 70: 70: Test 70: 70: Sparse2.mrv 70: 70: Test 70: 70: Sparse3.mrv 70: 70: Test 70: 70: MarvinNoCoords.mrv 70: 70: Test 70: 70: aspirin.mrv 70: 70: Test 70: 70: MarvinStereoGroupsZeros.mrv 70: 70: Test 70: 70: MarvinStereoGroupsAbs.mrv 70: 70: Test 70: 70: triphenylphosphine.mrv 70: 70: Test 70: 70: MarvinOldSuperGroupTest.mrv 70: 70: Test 70: 70: RadicalTests.mrv 70: 70: Test 70: 70: AnyBond.mrv 70: 70: Test 70: 70: cisBenzene.mrv 70: 70: Test 70: 70: DativeBond.mrv 70: 70: Test 70: 70: MultipleSgroup.mrv 70: 70: Test 70: 70: SgroupExpanded.mrv 70: 70: Test 70: 70: SgroupMultAttach.mrv 70: 70: Test 70: 70: MarvinMissingX2.mrv 70: 70: Test 70: 70: MarvinMissingY2.mrv 70: 70: Test 70: 70: DataSgroup.mrv 70: 70: Test 70: 70: MulticenterSgroup.mrv 70: 70: [05:15:50] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 70: [05:15:50] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 70: Test 70: 70: GenericSgroup.mrv 70: 70: Test 70: 70: MonomerSgroup.mrv 70: 70: Test 70: 70: modification_sgroup.mrv 70: 70: Test 70: 70: copolymer_sgroup.mrv 70: 70: Test 70: 70: MultipleSgroupParentInMiddleOfAtomBlock.mrv 70: 70: Test 70: 70: EmbeddedSgroups.mrv 70: 70: Test 70: 70: marvin03.mrv 70: 70: Test 70: 70: MarvinBadMissingMolID.mrv 70: 70: [05:15:50] 70: 70: **** 70: Test Assert 70: Expression Failed: 70: Violation occurred on line 329 in file ./Code/GraphMol/MarvinParse/testMrvToMol.cpp 70: Failed Expression: GetExpectedValue(expectedMrvName) == outMolStr 70: ---------- 70: Stacktrace: 70: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 70: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 70: 2# 0x0000AAAAB1734788 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 70: 3# 0x0000AAAAB1740918 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 70: 4# 0x0000AAAAB1728914 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 70: 5# 0x0000FFFF9A04255C in /usr/lib/aarch64-linux-gnu/libc.so.6 70: 6# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 70: 7# 0x0000AAAAB1728B70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 70: ---------- 70: **** 70: 70: Test 70: 70: MarvinBadMissingAtomID.mrv 70: 70: Expected id, elementType for an atom definition in MRV file 70: Test 70: 70: MarvinBadX2.mrv 70: 70: The values x2 and y2 must be large floats in MRV file 70: Test 70: 70: MarvinBadY2.mrv 70: 70: The values x2 and y2 must be large floats in MRV file 70: Test 70: 70: MarvinBadStereoGroupsAbs.mrv 70: 70: Unrecognized group definition 70: Test 70: 70: MarvinBadElementType.mrv 70: 70: Test 70: 70: MarvinBadMissingBondID.mrv 70: 70: Test 70: 70: MarvinBadMissingBondAtomRefs 70: 70: Test 70: 70: MarvinBadMissingBondOrder.mrv 70: 70: bond must have one of: order, queryType, or convention in MRV File 70: Test 70: 70: MarvinBadMissingSruMolID.mrv 70: 70: Expected a molID in MRV file 70: Test 70: 70: MarvinBadMissingSruID.mrv 70: 70: Test 70: 70: MarvinBadMissingSruRole.mrv 70: 70: Test 70: 70: MarvinBadMissingSruAtomRef.mrv 70: 70: Test 70: 70: MarvinBadMissingSruTitle.mrv 70: 70: Test 70: 70: MarvinBadSruAtomRef.mrv 70: 70: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 70: Test 70: 70: MarvinBadSruID.mrv 70: 70: Test 70: 70: MarvinBadSruRole.mrv 70: 70: Test 70: 70: MarvinBadSruAtomRef.mrv 70: 70: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 70: Test 70: 70: MarvinBadSruAtomRef.mrv 70: 70: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 70: Test 70: 70: MarvinBadSruConnect.mrv 70: 70: Expected a connect string of "hh, ht, eu" for a SruSgroup definition in MRV file 70: Test 70: 70: MarvinBadSupAttachAtom.mrv 70: 70: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 70: Test 70: 70: MarvinBadSupAttachBond.mrv 70: 70: Bond specification for an AttachmentPoint definition must be in the bond array in MRV file 70: Test 70: 70: MarvinBadSupAttachOrder.mrv 70: 70: Order for an AttachmentPoint definition must be an integer in MRV file 70: Test 70: 70: MarvinBadSupAttachAtom.mrv 70: 70: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 70: Test 70: 70: MarvinBadSupAttachAtom.mrv 70: 70: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 70: Test 70: 70: MarvinBadSupAttachAtom.mrv 70: 70: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 70: Test 70: 70: MarvinBadSupMissingAttachBond.mrv 70: 70: No attachment point found for bond to the condensed atom in a superatomSgroup 70: Test 70: 70: MarvinBadSupMissingAttachOrder.mrv 70: 70: Expected atom, order and bond, for an AttachmentPoint definition in MRV file 69: ...............[05:15:50] SMILES Parse Error: syntax error while parsing: invalidsmiles 69: [05:15:50] SMILES Parse Error: check for mistakes around position 1: 69: [05:15:50] invalidsmiles 69: [05:15:50] ^ 69: [05:15:50] SMILES Parse Error: Failed parsing SMILES 'invalidsmiles' for input: 'invalidsmiles' 70: Test 70: 70: marvin03.mrv 70: 70: Test 70: 70: Cubane.mrv 70: 70: Test 70: 70: FalseAtropisomer.mrv 70: 70: Test 70: 70: AtropEnhancedStereo.mrv 70: 70: Test 70: 70: AtropManyChirals.mrv 70: 70: Test 70: 70: AtropManyChiralsEnhanced.mrv 70: 70: Test 70: 70: AtropManyChiralsEnhanced2.mrv 70: 70: Test 70: 70: AtropManyChiralsEnhanced3.mrv 70: 70: Test 70: 70: AtropManyChiralsEnhanced4.mrv 70: 70: Test 70: 70: BMS-986142_3d_chiral.mrv 70: 70: Test 70: 70: BMS-986142_3d.mrv 70: 70: Test 70: 70: BMS-986142_atrop1.mrv 70: 70: Test 70: 70: BMS-986142_atrop2.mrv 70: 70: Test 70: 70: BMS-986142_atrop3.mrv 70: 70: Test 70: 70: BMS-986142_atrop4.mrv 70: 70: Test 70: 70: BMS-986142_atrop5.mrv 70: 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: Test 70: 70: BMS-986142_atrop6.mrv 70: 70: Test 70: 70: BMS-986142_atrop7.mrv 70: 70: Test 70: 70: BMS-986142_atrop8.mrv 70: 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: Test 70: 70: BMS-986142_atropBad2.mrv 70: 70: [05:15:50] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 70: Test 70: 70: JDQ443_3d.mrv 70: 70: Test 70: 70: JDQ443_atrop1.mrv 70: 70: Test 70: 70: JDQ443_atrop2.mrv 70: 70: Test 70: 70: JDQ443_atrop3.mrv 70: 70: Test 70: 70: JDQ443_atropBad1.mrv 70: 70: [05:15:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 70: Test 70: 70: RP-6306_atrop1.mrv 70: 70: Test 70: 70: RP-6306_atrop2.mrv 70: 70: Test 70: 70: RP-6306_atrop3.mrv 70: 70: Test 70: 70: RP-6306_atrop4.mrv 70: 70: Test 70: 70: RP-6306_atrop5.mrv 70: 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 70: Test 70: 70: RP-6306_atropBad1.mrv 70: 70: [05:15:50] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 70: Test 70: 70: RP-6306_atropBad2.mrv 70: 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 70: [05:15:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 69: ..... 69: ---------------------------------------------------------------------- 69: Ran 20 tests in 0.497s 69: 69: OK 70: Test 70: 70: RP-6306_3d.mrv 70: 70: Test 70: 70: Sotorasib_atrop1.mrv 70: 70: Test 70: 70: Sotorasib_atrop2.mrv 70: 70: Test 70: 70: Sotorasib_atrop3.mrv 70: 70: Test 70: 70: Sotorasib_atrop4.mrv 70: 70: Test 70: 70: Sotorasib_atrop5.mrv 70: 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: Test 70: 70: Sotorasib_atropBad1.mrv 70: 70: [05:15:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 70: Test 70: 70: Sotorasib_atropBad2.mrv 70: 70: [05:15:50] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 70: Test 70: 70: Sotorasib_3d.mrv 70: 70: Test 70: 70: ZM374979_atrop1.mrv 70: 70: Test 70: 70: ZM374979_atrop2.mrv 70: 70: Test 70: 70: ZM374979_atrop3.mrv 70: 70: Test 70: 70: ZM374979_atropBad1.mrv 70: 70: [05:15:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 64/246 Test #69: pyDepictor ............................. Passed 1.03 sec test 72 Start 72: testAtropisomers 72: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testAtropisomers 72: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 72: Test timeout computed to be: 7200 70: Test 70: 70: mrtx1719_3d.mrv 70: 70: Test 70: 70: mrtx1719_atrop1.mrv 70: 70: Test 70: 70: mrtx1719_atrop2.mrv 70: 70: Test 70: 70: mrtx1719_atrop3.mrv 70: 70: Test 70: 70: mrtx1719_atropBad1.mrv 70: 70: [05:15:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 72: [05:15:50] ---- Running with POSIX locale ----- 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 72: [05:15:50] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 72: [05:15:50] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 70: Test 70: 70: FalseAtropisomer.mrv 70: 70: Test 70: 70: AtropEnhancedStereo.mrv 70: 70: Test 70: 70: AtropManyChirals.mrv 70: 70: Test 70: 70: AtropManyChiralsEnhanced.mrv 70: 70: Test 70: 70: AtropManyChiralsEnhanced2.mrv 70: 70: Test 70: 70: AtropManyChiralsEnhanced3.mrv 70: 70: Test 70: 70: AtropManyChiralsEnhanced4.mrv 70: 70: Test 70: 70: BMS-986142_3d_chiral.mrv 70: 70: Test 70: 70: BMS-986142_3d.mrv 70: 70: Test 70: 70: BMS-986142_atrop1.mrv 70: 70: Test 70: 70: BMS-986142_atrop2.mrv 70: 70: Test 70: 70: BMS-986142_atrop3.mrv 70: 70: Test 70: 70: BMS-986142_atrop4.mrv 70: 70: Test 70: 70: BMS-986142_atrop5.mrv 70: 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 70: Test 70: 70: BMS-986142_atrop6.mrv 70: 70: Test 70: 70: BMS-986142_atrop7.mrv 70: 70: Test 70: 70: BMS-986142_atrop8.mrv 70: 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 72: [05:15:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 72: [05:15:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 70: Test 70: 70: BMS-986142_atropBad2.mrv 70: 70: [05:15:50] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:50] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 72: [05:15:51] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 72: [05:15:51] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 70: Test 70: 70: JDQ443_3d.mrv 70: 70: Test 70: 70: JDQ443_atrop1.mrv 70: 70: Test 70: 70: JDQ443_atrop2.mrv 70: 70: Test 70: 70: JDQ443_atrop3.mrv 70: 70: Test 70: 70: JDQ443_atropBad1.mrv 70: 70: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 71: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 71: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 71: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 71: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [05:15:51] deprecated group abbreviation ignored on line 24 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 71: smiles: [1*]c1c([2*])c([3*])c([4*])c(-c2c([9*])oc3c([8*])c([7*])c([6*])c([5*])c3c2=O)c1[10*] 72: [05:15:51] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 72: [05:15:51] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 71: [05:15:51] 71: 71: **** 71: Post-condition Violation 71: Element 'Mv' not found 71: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 71: Failed Expression: anum > -1 71: ---------- 71: Stacktrace: 71: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 3# 0x0000FFFFB78704F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 4# 0x0000FFFFB7882340 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 5# 0x0000FFFFB78831F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 6# RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 8# RDKit::v2::FileParsers::MolFromMolFile(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 9# 0x0000AAAAC215B7AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 10# 0x0000AAAAC21CC5BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 11# 0x0000AAAAC2135FB8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 12# 0x0000FFFFB6EE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 71: 13# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 71: 14# 0x0000AAAAC2136230 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: ---------- 71: **** 71: 72: [05:15:51] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 70: Test 70: 70: RP-6306_atrop1.mrv 70: 70: Test 70: 70: RP-6306_atrop2.mrv 70: 70: Test 70: 70: RP-6306_atrop3.mrv 70: 70: Test 70: 70: RP-6306_atrop4.mrv 70: 70: Test 70: 70: RP-6306_atrop5.mrv 70: 70: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 70: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 70: Test 70: 70: RP-6306_atropBad1.mrv 70: 70: [05:15:51] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 70: Test 70: 70: RP-6306_atropBad2.mrv 70: 70: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 70: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 70: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 72: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 70: Test 70: 70: RP-6306_3d.mrv 70: 70: Test 70: 70: Sotorasib_atrop1.mrv 70: 70: Test 70: 70: Sotorasib_atrop2.mrv 70: 70: Test 70: 70: Sotorasib_atrop3.mrv 70: 70: Test 70: 70: Sotorasib_atrop4.mrv 70: 70: Test 70: 70: Sotorasib_atrop5.mrv 70: 70: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: [05:15:51] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 70: Test 70: 70: Sotorasib_atropBad1.mrv 70: 70: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 70: Test 70: 70: Sotorasib_atropBad2.mrv 70: 70: [05:15:51] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 70: Test 70: 70: Sotorasib_3d.mrv 70: 70: Test 70: 70: ZM374979_atrop1.mrv 70: 70: Test 70: 70: ZM374979_atrop2.mrv 70: 70: Test 70: 70: ZM374979_atrop3.mrv 70: 70: Test 70: 70: ZM374979_atropBad1.mrv 70: 70: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 70: Test 70: 70: mrtx1719_3d.mrv 70: 70: Test 70: 70: mrtx1719_atrop1.mrv 70: 70: Test 70: 70: mrtx1719_atrop2.mrv 70: 70: Test 70: 70: mrtx1719_atrop3.mrv 70: 70: Test 70: 70: mrtx1719_atropBad1.mrv 70: 70: [05:15:51] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 71: [05:15:51] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 71: [05:15:51] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 70: Test 70: 70: AlexRxn.mrv 70: 70: Test 70: 70: BadReactionSign.mrv 70: 70: Test 70: 70: bondArray_node.mrv 70: 70: Test 70: 70: marvin03.mrv 70: 70: Test 70: 70: marvin04.mrv 70: 70: Test 70: 70: marvin08.mrv 70: 70: Test 70: 70: marvin09.mrv 70: 70: Test 70: 70: marvin11.mrv 70: 70: Test 70: 70: marvin05.mrv 70: 70: Test 70: 70: EmptyRxn.mrv 70: 70: [05:15:51] initialization failed 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: Atropisomers- 1 hits 3 misses 72: Final results: 72: Found atropisomers in TestMultInSDF.sdf - 1 hits 4 misses 65/246 Test #72: testAtropisomers ....................... Passed 0.55 sec test 73 Start 73: testSquiggleDoubleBonds 73: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testSquiggleDoubleBonds 73: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 73: Test timeout computed to be: 7200 71: ---------------------------------- 71: ---------------------------------- 71: [05:15:51] 71: 71: **** 71: Pre-condition Violation 71: rlabel out of range for MDL files 71: Violation occurred on line 868 in file ./Code/GraphMol/Atom.cpp 71: Failed Expression: rlabel >= 0 && rlabel < 100 71: ---------- 71: Stacktrace: 71: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 2# RDKit::setAtomRLabel(RDKit::Atom*, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 71: 3# 0x0000AAAAC213CED8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 4# 0x0000AAAAC21CC61C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 5# 0x0000AAAAC2135FB8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 6# 0x0000FFFFB6EE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 71: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 71: 8# 0x0000AAAAC2136230 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: ---------- 71: **** 71: 71: [05:15:51] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 63: [05:15:51] SMARTS Parse Error: unclosed ring for input: 'C1.C2.C3.C4.C5' 63: [05:15:51] SMILES Parse Error: unclosed ring for input: 'C1.C2.C3.C4.C5' 63: [05:15:51] SMARTS Parse Error: syntax error while parsing: C1C)foo 63: [05:15:51] SMARTS Parse Error: check for mistakes around position 4: 63: [05:15:51] C1C)foo 63: [05:15:51] ~~~^ 63: [05:15:51] SMARTS Parse Error: Failed parsing SMARTS 'C1C)foo' for input: 'C1C)foo' 63: [05:15:51] SMILES Parse Error: extra close parentheses while parsing: C1C)foo 63: [05:15:51] SMILES Parse Error: check for mistakes around position 4: 63: [05:15:51] C1C)foo 63: [05:15:51] ~~~^ 63: [05:15:51] SMILES Parse Error: Failed parsing SMILES 'C1C)foo' for input: 'C1C)foo' 63: [05:15:51] 63: 63: **** 63: Pre-condition Violation 63: rootedAtAtom must be less than the number of atoms 63: Violation occurred on line 498 in file ./Code/GraphMol/SmilesParse/SmilesWrite.cpp 63: Failed Expression: params.rootedAtAtom < 0 || static_cast(params.rootedAtAtom) < mol.getNumAtoms() 63: ---------- 63: Stacktrace: 63: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 63: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 63: 2# RDKit::SmilesWrite::detail::MolToSmiles[abi:cxx11](RDKit::ROMol const&, RDKit::SmilesWriteParams const&, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSmilesParse.so.1 63: 3# RDKit::MolToSmiles[abi:cxx11](RDKit::ROMol const&, RDKit::SmilesWriteParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSmilesParse.so.1 63: 4# 0x0000AAAADF1BBF5C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: 5# 0x0000AAAADF25032C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: 6# 0x0000AAAADF250CE0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: 7# 0x0000AAAADF251114 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: 8# 0x0000AAAADF224638 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: 9# 0x0000AAAADF224B6C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: 10# 0x0000AAAADF1B668C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: 11# 0x0000FFFF8A18255C in /usr/lib/aarch64-linux-gnu/libc.so.6 63: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 63: 13# 0x0000AAAADF1B6770 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 63: ---------- 63: **** 63: 63: [05:15:51] SMILES Parse Error: syntax error while parsing: CClâ‚‚O 63: [05:15:51] SMILES Parse Error: check for mistakes around position 4: 63: [05:15:51] CClâ‚‚O 63: [05:15:51] ~~~^ 63: [05:15:51] SMILES Parse Error: Failed parsing SMILES 'CClâ‚‚O' for input: 'CClâ‚‚O' 63: [05:15:51] SMARTS Parse Error: syntax error while parsing: CClâ‚‚O 63: [05:15:51] SMARTS Parse Error: check for mistakes around position 4: 63: [05:15:51] CClâ‚‚O 63: [05:15:51] ~~~^ 63: [05:15:51] SMARTS Parse Error: Failed parsing SMARTS 'CClâ‚‚O' for input: 'CClâ‚‚O' 63: [05:15:51] SMILES Parse Error: syntax error while parsing: CClâ‚‚OZrâ‚‚CClO 63: [05:15:51] SMILES Parse Error: check for mistakes around position 4: 63: [05:15:51] CClâ‚‚OZrâ‚‚CClO 63: [05:15:51] ~~~^ 63: [05:15:51] SMILES Parse Error: Failed parsing SMILES 'CClâ‚‚OZrâ‚‚CClO' for input: 'CClâ‚‚OZrâ‚‚CClO' 63: [05:15:51] SMARTS Parse Error: syntax error while parsing: CClâ‚‚OZrâ‚‚CClO 63: [05:15:51] SMARTS Parse Error: check for mistakes around position 4: 63: [05:15:51] CClâ‚‚OZrâ‚‚CClO 63: [05:15:51] ~~~^ 63: [05:15:51] SMARTS Parse Error: Failed parsing SMARTS 'CClâ‚‚OZrâ‚‚CClO' for input: 'CClâ‚‚OZrâ‚‚CClO' 63: =============================================================================== 63: All tests passed (1834 assertions in 74 test cases) 63: 66/246 Test #63: smiTestCatch ........................... Passed 3.15 sec test 74 Start 74: testMolSupplier 74: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testMolSupplier 74: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 74: Test timeout computed to be: 7200 70: Test 70: 70: RxnNoCoords.mrv 70: 70: Test 70: 70: mrvValenceZero.mrv 70: 70: Test 70: 70: condition_coordinates_mpoint.mrv 70: 70: Test 70: 70: marvin01.mrv 70: 70: Test 70: 70: aspirineSynthesisWithAttributes.mrv 70: 70: Test 70: 70: marvin01.mrv 70: 70: Test 70: 70: NewChiralTest 70: 70: Test 70: 70: NewChiralTest 70: 70: Test 70: 70: NewChiralTestNoChiral 70: 70: Test 70: 70: NewChiralTestNoChiral 70: 70: Test 70: 70: NewChiralTest2 70: 70: Test 70: 70: NewChiralTest2 70: 70: Test 70: 70: NewChiralTest2AllChiral 70: 70: Test 70: 70: NewChiralTest2AllChiral 70: 70: Test 70: 70: Vendor839 70: 70: Test 70: 70: DoubleBondChain 70: 70: Test 70: 70: Na_Mg_Al_OH 70: 70: Test 70: 70: Pb 70: 70: Test 70: 70: O_Mg_Si 70: 70: Test 70: 70: SquiggleBond 70: 70: Test 70: 70: BigMacrocycle 70: 70: Test 70: 70: Smiles1 70: 67/246 Test #70: testMrvToMol ........................... Passed 1.62 sec test 75 Start 75: testGeneralFileReader 75: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testGeneralFileReader 75: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 75: Test timeout computed to be: 7200 73: Randomness seeded to: 3703737887 73: =============================================================================== 73: All tests passed (15 assertions in 3 test cases) 73: 68/246 Test #73: testSquiggleDoubleBonds ................ Passed 0.05 sec test 76 Start 76: testMultithreadedMolSupplier 76: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testMultithreadedMolSupplier 76: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 76: Test timeout computed to be: 7200 74: [05:15:51] 74: ----------------------------------------- 75: [05:15:51] 75: ----------------------------------------- 75: [05:15:51] Finished: testDetermineFormat() 75: [05:15:51] ----------------------------------------- 75: 75: [05:15:51] 75: ----------------------------------------- 76: [05:15:51] 76: ----------------------------------------- 75: [05:15:51] Finished: testSdf() 75: [05:15:51] ----------------------------------------- 75: 75: [05:15:51] 75: ----------------------------------------- 74: [05:15:51] Ignoring invalid chirality label: '2_bad_chirality' 75: [05:15:51] Finished: testSmi() 75: [05:15:51] ----------------------------------------- 75: 75: [05:15:51] 75: ----------------------------------------- 75: [05:15:51] Finished: testMae() 75: [05:15:51] ----------------------------------------- 75: 75: [05:15:51] 75: ----------------------------------------- 75: [05:15:51] Finished: testTdt() 75: [05:15:51] ----------------------------------------- 75: 74: [05:15:51] Ignoring invalid chirality label: '2_bad_chirality' 69/246 Test #75: testGeneralFileReader .................. Passed 0.15 sec test 77 Start 77: testMolWriter 77: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testMolWriter 77: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 77: Test timeout computed to be: 7200 71: [05:15:51] SMARTS Parse Error: syntax error while parsing: MyDogHasFleas 71: [05:15:51] SMARTS Parse Error: check for mistakes around position 1: 71: [05:15:51] MyDogHasFleas 71: [05:15:51] ^ 71: [05:15:51] SMARTS Parse Error: Failed parsing SMARTS 'MyDogHasFleas' for input: 'MyDogHasFleas' 74: [05:15:51] Finished: testMolSup() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testRandMolSup() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 71: [05:15:51] Empty atom list: 'M ALS 1 0 F' on line 8. 71: C 71: [05:15:51] ------------------------------------- 71: [05:15:51] Test multithreading Locale Switching 74: [05:15:51] Finished: testSmilesSup() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] ------------------------------------------------------ 74: [05:15:51] SMILES Parse Error: syntax error while parsing: fail 74: [05:15:51] SMILES Parse Error: check for mistakes around position 1: 74: [05:15:51] fail 74: [05:15:51] ^ 74: [05:15:51] SMILES Parse Error: Failed parsing SMILES 'fail' for input: 'fail' 74: [05:15:51] ERROR: Smiles parse error on line 3 74: [05:15:51] ERROR: Cannot create molecule from : 'fail' 74: [05:15:51] ------------------------------------------------------ 74: [05:15:51] ------------------------------------------------------ 74: [05:15:51] >>> This may result in an infinite loop. It should finish almost immediately: 74: [05:15:51] <<< done. 74: [05:15:51] Finished: testSmilesSupFromText() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testSmilesWriter() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testSDWriter() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testSDSupplierEnding() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testSuppliersEmptyFile() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testCisTrans() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testStereoRound() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 74: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 74: [05:15:51] Finished: testIssue226() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testTDTSupplier1() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testTDTSupplier2() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testTDTSupplier3() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testSDSupplierFromText() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 71: [05:15:51] Test multithreading (Done) 71: [05:15:51] ------------------------------------- 74: [05:15:51] ERROR: Problems encountered parsing data fields 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] ERROR: Problems encountered parsing data fields 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Spurious data before the first property will be ignored 74: [05:15:51] Property will be truncated after the first blank line 74: [05:15:51] Property will be truncated after the first blank line 74: [05:15:51] Property will be truncated after the first blank line 74: [05:15:51] Finished: testSDSupplierStrLax1() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] ERROR: Problems encountered parsing data fields 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Property will be truncated after the first blank line 74: [05:15:51] Finished: testSDSupplierStrLax2() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] ERROR: Problems encountered parsing data fields 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] ERROR: Problems encountered parsing data fields 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Spurious data before the first property will be ignored 74: [05:15:51] Property will be truncated after the first blank line 74: [05:15:51] Property will be truncated after the first blank line 74: [05:15:51] Property will be truncated after the first blank line 74: [05:15:51] Finished: testSDSupplierFromTextStrLax1() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] ERROR: Problems encountered parsing data fields 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Property will be truncated after the first blank line 74: [05:15:51] Finished: testSDSupplierFromTextStrLax2() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testIssue265() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] ERROR: End of data field name not found 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Explicit valence for atom # 0 F, 2, is greater than permitted 74: [05:15:51] ERROR: Could not sanitize molecule ending on line 16 74: [05:15:51] ERROR: Explicit valence for atom # 0 F, 2, is greater than permitted 74: [05:15:51] ERROR: Atom line too short: ' 1 2 1 0 0 0 0' on line 12 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] ERROR: Bond line too short: 'M END' on line 18 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Finished: testSDErrorHandling() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testIssue381() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testSetStreamIndices() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 71: *************************************** 71: *************************************** 74: [05:15:51] Finished: testMixIterAndRandom() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: build: 74: [05:15:51] Finished: testRemoveHs() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testGetItemText() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 71: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [05:15:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [05:15:51] bond with order 0 found on line 7. This is not part of the MDL specification. 74: [05:15:51] Finished: testForwardSDSupplier() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testMissingCRSDSupplier() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testIssue3482695() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 71: [05:15:51] Skipping unrecognized collection type at line 26: MDLV30/HILITE BONDS=(1 7) 71: [05:15:51] Skipping unrecognized collection type at line 27: MDLV30/HILITE ATOMS=(1 7) 71: [05:15:51] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 74: [05:15:51] ERROR: Cannot convert 'foo' to unsigned int on line 557 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Finished: testIssue3525673() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testBlankLinesInProps() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testSkipLines() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testGitHub23() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testGitHub88() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 71: generating smiles 71: smiles: c12n(C3OC(COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4CO)(=O)S)(=O)S)(=O)S)(S)=O)(S)=O)(=O)S)(=O)S)(S)=O)(=O)S)(S)=O)C(OP(S)(=O)OCC(COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(cc5)c(=O)[nH]c(N)n6)OC4COP(OC4C(O)C(n5c(=O)[nH]c(=O)cc5)OC4COP(OC4C(O)C(n5c(=O)nc(N)cc5)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4COP(OC4C(O)C(n5c6c(nc5)c(N)ncn6)OC4CO)(=O)S)(=O)S)(=O)S)(S)=O)(S)=O)(=O)S)(=O)S)(S)=O)(=O)S)(S)=O)(S)=O)O)C3O)ccc1c(=O)[nH]c(N)n2 71: converting back 74: [05:15:51] Finished: testGitHub2285() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 74: [05:15:51] ERROR: Smiles parse error on line 1 74: [05:15:51] ERROR: Cannot create molecule from : 'c1ccccc' 74: [05:15:51] SMILES Parse Error: extra open parentheses while parsing: C(C 74: [05:15:51] SMILES Parse Error: check for mistakes around position 2: 74: [05:15:51] C(C 74: [05:15:51] ~^ 74: [05:15:51] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 74: [05:15:51] ERROR: Smiles parse error on line 3 74: [05:15:51] ERROR: Cannot create molecule from : 'C(C' 74: [05:15:51] Explicit valence for atom # 1 C, 5, is greater than permitted 74: [05:15:51] ERROR: Could not sanitize molecule on line 5 74: [05:15:51] ERROR: Explicit valence for atom # 1 C, 5, is greater than permitted 74: [05:15:51] Explicit valence for atom # 1 F, 2, is greater than permitted 74: [05:15:51] ERROR: Could not sanitize molecule ending on line 21 74: [05:15:51] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 74: [05:15:51] Explicit valence for atom # 1 F, 2, is greater than permitted 74: [05:15:51] ERROR: Could not sanitize molecule ending on line 21 74: [05:15:51] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 74: [05:15:51] Explicit valence for atom # 1 F, 2, is greater than permitted 74: [05:15:51] ERROR: Could not sanitize molecule ending on line 21 74: [05:15:51] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 74: [05:15:51] ERROR: Atom line too short: ' -9.6' on line 28 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Explicit valence for atom # 1 F, 2, is greater than permitted 74: [05:15:51] ERROR: Could not sanitize molecule ending on line 21 74: [05:15:51] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 74: [05:15:51] ERROR: Atom line too short: ' -9.6' on line 28 74: [05:15:51] ERROR: moving to the beginning of the next molecule 74: [05:15:51] Finished: testGitHub2479() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 71: check isomorphism 77: [05:15:51] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 74: [05:15:51] Ignoring invalid chirality label: '7_S_8_9_6_10' 74: [05:15:51] Finished: testGitHub2881() 74: [05:15:51] ----------------------------------------- 74: 74: [05:15:51] ----------------------------------------- 74: [05:15:51] Finished: testGitHub3517() 74: [05:15:51] ----------------------------------------- 74: 70/246 Test #74: testMolSupplier ........................ Passed 0.44 sec 77: 0.40201265 0.40201265 77: -0.13299436 -0.13299436 77: 1.00000017 1.00000017 77: 0.8762226 0.8762226 77: 0.9973909 0.9973909 77: 1.00000003 1.00000003 77: 0.36613799 0.36613799 77: 2.1107185 2.1107185 77: 0.99999982 0.99999982 77: 2.48696157 2.48696157 77: 1.00479935 1.00479935 77: 0.99999999 0.99999999 77: 3.03311841 3.03311841 77: 2.23739955 2.23739955 77: 1.0000001 1.0000001 77: 3.00772337 3.00772337 77: 0.37399294 0.37399294 77: 2.07713325 2.07713325 77: 3.0077234 3.0077234 77: 0.37399312 0.37399312 77: -0.07713336 -0.07713336 test 78 Start 78: testTplParser 78: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testTplParser 78: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 78: Test timeout computed to be: 7200 77: [05:15:51] bond with order 0 found on line 11. This is not part of the MDL specification. 77: [05:15:51] bond with order 0 found on line 16. This is not part of the MDL specification. 71/246 Test #77: testMolWriter .......................... Passed 0.31 sec test 79 Start 79: testMol2ToMol 79: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testMol2ToMol 79: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 79: Test timeout computed to be: 7200 72/246 Test #78: testTplParser .......................... Passed 0.04 sec test 80 Start 80: testSequence 80: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testSequence 80: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 80: Test timeout computed to be: 7200 80: Sequence: GREG 80: HELM: PEPTIDE1{G.R.E.G}$$$$ 80: Smiles: N=C(N)NCCC[C@H](NC(=O)CN)C(=O)N[C@@H](CCC(=O)O)C(=O)NCC(=O)O 80: PDB: 80: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 23 OE1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 24 OE2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 80: CONECT 1 2 80: CONECT 2 3 80: CONECT 3 4 4 5 80: CONECT 5 6 80: CONECT 6 7 9 80: CONECT 7 8 8 16 80: CONECT 9 10 80: CONECT 10 11 80: CONECT 11 12 80: CONECT 12 13 80: CONECT 13 14 14 15 80: CONECT 16 17 80: CONECT 17 18 20 80: CONECT 18 19 19 25 80: CONECT 20 21 80: CONECT 21 22 80: CONECT 22 23 23 24 80: CONECT 25 26 80: CONECT 26 27 80: CONECT 27 28 28 29 80: END 80: 80: Sequence: TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN 80: HELM: PEPTIDE1{T.T.C.C.P.S.I.V.A.R.S.N.F.N.V.C.R.L.P.G.T.P.E.A.I.C.A.T.Y.T.G.C.I.I.I.P.G.A.T.C.P.G.D.Y.A.N}$$$$ 80: Smiles: CC[C@H](C)[C@H](NC(=O)[C@H](C)NC(=O)[C@H](CCC(=O)O)NC(=O)[C@@H]1CCCN1C(=O)[C@@H](NC(=O)CNC(=O)[C@@H]1CCCN1C(=O)[C@H](CC(C)C)NC(=O)[C@H](CCCNC(=N)N)NC(=O)[C@H](CS)NC(=O)[C@@H](NC(=O)[C@H](CC(N)=O)NC(=O)[C@H](Cc1ccccc1)NC(=O)[C@H](CC(N)=O)NC(=O)[C@H](CO)NC(=O)[C@H](CCCNC(=N)N)NC(=O)[C@H](C)NC(=O)[C@@H](NC(=O)[C@@H](NC(=O)[C@H](CO)NC(=O)[C@@H]1CCCN1C(=O)[C@H](CS)NC(=O)[C@H](CS)NC(=O)[C@@H](NC(=O)[C@@H](N)[C@@H](C)O)[C@@H](C)O)[C@@H](C)CC)C(C)C)C(C)C)[C@@H](C)O)C(=O)N[C@@H](CS)C(=O)N[C@@H](C)C(=O)N[C@H](C(=O)N[C@@H](Cc1ccc(O)cc1)C(=O)N[C@H](C(=O)NCC(=O)N[C@@H](CS)C(=O)N[C@H](C(=O)N[C@H](C(=O)N[C@H](C(=O)N1CCC[C@H]1C(=O)NCC(=O)N[C@@H](C)C(=O)N[C@H](C(=O)N[C@@H](CS)C(=O)N1CCC[C@H]1C(=O)NCC(=O)N[C@@H](CC(=O)O)C(=O)N[C@@H](Cc1ccc(O)cc1)C(=O)N[C@@H](C)C(=O)N[C@@H](CC(N)=O)C(=O)O)[C@@H](C)O)[C@@H](C)CC)[C@@H](C)CC)[C@@H](C)CC)[C@@H](C)O)[C@@H](C)O 80: PDB: 80: ATOM 1 N THR A 1 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 2 CA THR A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 3 C THR A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 4 O THR A 1 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 5 CB THR A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 6 OG1 THR A 1 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 7 CG2 THR A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 8 N THR A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 9 CA THR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 10 C THR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 11 O THR A 2 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 12 CB THR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 13 OG1 THR A 2 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 14 CG2 THR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 15 N CYS A 3 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 16 CA CYS A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 17 C CYS A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 18 O CYS A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 19 CB CYS A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 20 SG CYS A 3 0.000 0.000 0.000 1.00 0.00 S 80: ATOM 21 N CYS A 4 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 22 CA CYS A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 23 C CYS A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 24 O CYS A 4 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 25 CB CYS A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 26 SG CYS A 4 0.000 0.000 0.000 1.00 0.00 S 80: ATOM 27 N PRO A 5 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 28 CA PRO A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 29 C PRO A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 30 O PRO A 5 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 31 CB PRO A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 32 CG PRO A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 33 CD PRO A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 34 N SER A 6 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 35 CA SER A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 36 C SER A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 37 O SER A 6 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 38 CB SER A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 39 OG SER A 6 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 40 N ILE A 7 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 41 CA ILE A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 42 C ILE A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 43 O ILE A 7 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 44 CB ILE A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 45 CG1 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 46 CG2 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 47 CD1 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 48 N VAL A 8 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 49 CA VAL A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 50 C VAL A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 51 O VAL A 8 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 52 CB VAL A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 53 CG1 VAL A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 54 CG2 VAL A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 55 N ALA A 9 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 56 CA ALA A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 57 C ALA A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 58 O ALA A 9 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 59 CB ALA A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 60 N ARG A 10 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 61 CA ARG A 10 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 62 C ARG A 10 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 63 O ARG A 10 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 64 CB ARG A 10 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 65 CG ARG A 10 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 66 CD ARG A 10 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 67 NE ARG A 10 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 68 CZ ARG A 10 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 69 NH1 ARG A 10 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 70 NH2 ARG A 10 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 71 N SER A 11 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 72 CA SER A 11 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 73 C SER A 11 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 74 O SER A 11 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 75 CB SER A 11 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 76 OG SER A 11 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 77 N ASN A 12 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 78 CA ASN A 12 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 79 C ASN A 12 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 80 O ASN A 12 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 81 CB ASN A 12 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 82 CG ASN A 12 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 83 OD1 ASN A 12 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 84 ND2 ASN A 12 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 85 N PHE A 13 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 86 CA PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 87 C PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 88 O PHE A 13 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 89 CB PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 90 CG PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 91 CD1 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 92 CD2 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 93 CE1 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 94 CE2 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 95 CZ PHE A 13 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 96 N ASN A 14 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 97 CA ASN A 14 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 98 C ASN A 14 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 99 O ASN A 14 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 100 CB ASN A 14 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 101 CG ASN A 14 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 102 OD1 ASN A 14 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 103 ND2 ASN A 14 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 104 N VAL A 15 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 105 CA VAL A 15 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 106 C VAL A 15 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 107 O VAL A 15 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 108 CB VAL A 15 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 109 CG1 VAL A 15 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 110 CG2 VAL A 15 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 111 N CYS A 16 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 112 CA CYS A 16 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 113 C CYS A 16 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 114 O CYS A 16 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 115 CB CYS A 16 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 116 SG CYS A 16 0.000 0.000 0.000 1.00 0.00 S 80: ATOM 117 N ARG A 17 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 118 CA ARG A 17 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 119 C ARG A 17 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 120 O ARG A 17 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 121 CB ARG A 17 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 122 CG ARG A 17 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 123 CD ARG A 17 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 124 NE ARG A 17 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 125 CZ ARG A 17 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 126 NH1 ARG A 17 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 127 NH2 ARG A 17 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 128 N LEU A 18 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 129 CA LEU A 18 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 130 C LEU A 18 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 131 O LEU A 18 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 132 CB LEU A 18 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 133 CG LEU A 18 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 134 CD1 LEU A 18 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 135 CD2 LEU A 18 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 136 N PRO A 19 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 137 CA PRO A 19 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 138 C PRO A 19 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 139 O PRO A 19 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 140 CB PRO A 19 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 141 CG PRO A 19 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 142 CD PRO A 19 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 143 N GLY A 20 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 144 CA GLY A 20 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 145 C GLY A 20 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 146 O GLY A 20 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 147 N THR A 21 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 148 CA THR A 21 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 149 C THR A 21 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 150 O THR A 21 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 151 CB THR A 21 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 152 OG1 THR A 21 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 153 CG2 THR A 21 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 154 N PRO A 22 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 155 CA PRO A 22 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 156 C PRO A 22 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 157 O PRO A 22 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 158 CB PRO A 22 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 159 CG PRO A 22 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 160 CD PRO A 22 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 161 N GLU A 23 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 162 CA GLU A 23 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 163 C GLU A 23 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 164 O GLU A 23 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 165 CB GLU A 23 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 166 CG GLU A 23 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 167 CD GLU A 23 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 168 OE1 GLU A 23 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 169 OE2 GLU A 23 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 170 N ALA A 24 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 171 CA ALA A 24 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 172 C ALA A 24 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 173 O ALA A 24 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 174 CB ALA A 24 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 175 N ILE A 25 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 176 CA ILE A 25 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 177 C ILE A 25 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 178 O ILE A 25 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 179 CB ILE A 25 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 180 CG1 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 181 CG2 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 182 CD1 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 183 N CYS A 26 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 184 CA CYS A 26 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 185 C CYS A 26 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 186 O CYS A 26 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 187 CB CYS A 26 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 188 SG CYS A 26 0.000 0.000 0.000 1.00 0.00 S 80: ATOM 189 N ALA A 27 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 190 CA ALA A 27 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 191 C ALA A 27 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 192 O ALA A 27 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 193 CB ALA A 27 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 194 N THR A 28 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 195 CA THR A 28 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 196 C THR A 28 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 197 O THR A 28 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 198 CB THR A 28 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 199 OG1 THR A 28 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 200 CG2 THR A 28 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 201 N TYR A 29 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 202 CA TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 203 C TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 204 O TYR A 29 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 205 CB TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 206 CG TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 207 CD1 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 208 CD2 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 209 CE1 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 210 CE2 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 211 CZ TYR A 29 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 212 OH TYR A 29 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 213 N THR A 30 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 214 CA THR A 30 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 215 C THR A 30 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 216 O THR A 30 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 217 CB THR A 30 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 218 OG1 THR A 30 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 219 CG2 THR A 30 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 220 N GLY A 31 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 221 CA GLY A 31 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 222 C GLY A 31 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 223 O GLY A 31 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 224 N CYS A 32 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 225 CA CYS A 32 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 226 C CYS A 32 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 227 O CYS A 32 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 228 CB CYS A 32 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 229 SG CYS A 32 0.000 0.000 0.000 1.00 0.00 S 80: ATOM 230 N ILE A 33 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 231 CA ILE A 33 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 232 C ILE A 33 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 233 O ILE A 33 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 234 CB ILE A 33 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 235 CG1 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 236 CG2 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 237 CD1 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 238 N ILE A 34 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 239 CA ILE A 34 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 240 C ILE A 34 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 241 O ILE A 34 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 242 CB ILE A 34 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 243 CG1 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 244 CG2 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 245 CD1 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 246 N ILE A 35 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 247 CA ILE A 35 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 248 C ILE A 35 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 249 O ILE A 35 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 250 CB ILE A 35 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 251 CG1 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 252 CG2 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 253 CD1 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 254 N PRO A 36 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 255 CA PRO A 36 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 256 C PRO A 36 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 257 O PRO A 36 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 258 CB PRO A 36 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 259 CG PRO A 36 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 260 CD PRO A 36 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 261 N GLY A 37 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 262 CA GLY A 37 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 263 C GLY A 37 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 264 O GLY A 37 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 265 N ALA A 38 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 266 CA ALA A 38 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 267 C ALA A 38 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 268 O ALA A 38 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 269 CB ALA A 38 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 270 N THR A 39 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 271 CA THR A 39 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 272 C THR A 39 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 273 O THR A 39 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 274 CB THR A 39 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 275 OG1 THR A 39 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 276 CG2 THR A 39 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 277 N CYS A 40 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 278 CA CYS A 40 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 279 C CYS A 40 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 280 O CYS A 40 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 281 CB CYS A 40 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 282 SG CYS A 40 0.000 0.000 0.000 1.00 0.00 S 80: ATOM 283 N PRO A 41 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 284 CA PRO A 41 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 285 C PRO A 41 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 286 O PRO A 41 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 287 CB PRO A 41 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 288 CG PRO A 41 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 289 CD PRO A 41 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 290 N GLY A 42 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 291 CA GLY A 42 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 292 C GLY A 42 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 293 O GLY A 42 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 294 N ASP A 43 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 295 CA ASP A 43 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 296 C ASP A 43 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 297 O ASP A 43 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 298 CB ASP A 43 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 299 CG ASP A 43 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 300 OD1 ASP A 43 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 301 OD2 ASP A 43 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 302 N TYR A 44 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 303 CA TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 304 C TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 305 O TYR A 44 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 306 CB TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 307 CG TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 308 CD1 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 309 CD2 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 310 CE1 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 311 CE2 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 312 CZ TYR A 44 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 313 OH TYR A 44 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 314 N ALA A 45 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 315 CA ALA A 45 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 316 C ALA A 45 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 317 O ALA A 45 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 318 CB ALA A 45 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 319 N ASN A 46 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 320 CA ASN A 46 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 321 C ASN A 46 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 322 O ASN A 46 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 323 CB ASN A 46 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 324 CG ASN A 46 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 325 OD1 ASN A 46 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 326 ND2 ASN A 46 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 327 OXT ASN A 46 0.000 0.000 0.000 1.00 0.00 O 80: CONECT 1 2 80: CONECT 2 3 5 80: CONECT 3 4 4 8 80: CONECT 5 6 7 80: CONECT 8 9 80: CONECT 9 10 12 80: CONECT 10 11 11 15 80: CONECT 12 13 14 80: CONECT 15 16 80: CONECT 16 17 19 80: CONECT 17 18 18 21 80: CONECT 19 20 80: CONECT 21 22 80: CONECT 22 23 25 80: CONECT 23 24 24 27 80: CONECT 25 26 80: CONECT 27 28 33 80: CONECT 28 29 31 80: CONECT 29 30 30 34 80: CONECT 31 32 80: CONECT 32 33 80: CONECT 34 35 80: CONECT 35 36 38 80: CONECT 36 37 37 40 80: CONECT 38 39 80: CONECT 40 41 80: CONECT 41 42 44 80: CONECT 42 43 43 48 80: CONECT 44 45 46 80: CONECT 46 47 80: CONECT 48 49 80: CONECT 49 50 52 80: CONECT 50 51 51 55 80: CONECT 52 53 54 80: CONECT 55 56 80: CONECT 56 57 59 80: CONECT 57 58 58 60 80: CONECT 60 61 80: CONECT 61 62 64 80: CONECT 62 63 63 71 80: CONECT 64 65 80: CONECT 65 66 80: CONECT 66 67 80: CONECT 67 68 80: CONECT 68 69 69 70 80: CONECT 71 72 80: CONECT 72 73 75 80: CONECT 73 74 74 77 80: CONECT 75 76 80: CONECT 77 78 80: CONECT 78 79 81 80: CONECT 79 80 80 85 80: CONECT 81 82 80: CONECT 82 83 83 84 80: CONECT 85 86 80: CONECT 86 87 89 80: CONECT 87 88 88 96 80: CONECT 89 90 80: CONECT 90 91 91 92 80: CONECT 91 93 80: CONECT 92 94 94 80: CONECT 93 95 95 80: CONECT 94 95 80: CONECT 96 97 80: CONECT 97 98 100 80: CONECT 98 99 99 104 80: CONECT 100 101 80: CONECT 101 102 102 103 80: CONECT 104 105 80: CONECT 105 106 108 80: CONECT 106 107 107 111 80: CONECT 108 109 110 80: CONECT 111 112 80: CONECT 112 113 115 80: CONECT 113 114 114 117 80: CONECT 115 116 80: CONECT 117 118 80: CONECT 118 119 121 80: CONECT 119 120 120 128 80: CONECT 121 122 80: CONECT 122 123 80: CONECT 123 124 80: CONECT 124 125 80: CONECT 125 126 126 127 80: CONECT 128 129 80: CONECT 129 130 132 80: CONECT 130 131 131 136 80: CONECT 132 133 80: CONECT 133 134 135 80: CONECT 136 137 142 80: CONECT 137 138 140 80: CONECT 138 139 139 143 80: CONECT 140 141 80: CONECT 141 142 80: CONECT 143 144 80: CONECT 144 145 80: CONECT 145 146 146 147 80: CONECT 147 148 80: CONECT 148 149 151 80: CONECT 149 150 150 154 80: CONECT 151 152 153 80: CONECT 154 155 160 80: CONECT 155 156 158 80: CONECT 156 157 157 161 80: CONECT 158 159 80: CONECT 159 160 80: CONECT 161 162 80: CONECT 162 163 165 80: CONECT 163 164 164 170 80: CONECT 165 166 80: CONECT 166 167 80: CONECT 167 168 168 169 80: CONECT 170 171 80: CONECT 171 172 174 80: CONECT 172 173 173 175 80: CONECT 175 176 80: CONECT 176 177 179 80: CONECT 177 178 178 183 80: CONECT 179 180 181 80: CONECT 181 182 80: CONECT 183 184 80: CONECT 184 185 187 80: CONECT 185 186 186 189 80: CONECT 187 188 80: CONECT 189 190 80: CONECT 190 191 193 80: CONECT 191 192 192 194 80: CONECT 194 195 80: CONECT 195 196 198 80: CONECT 196 197 197 201 80: CONECT 198 199 200 80: CONECT 201 202 80: CONECT 202 203 205 80: CONECT 203 204 204 213 80: CONECT 205 206 80: CONECT 206 207 207 208 80: CONECT 207 209 80: CONECT 208 210 210 80: CONECT 209 211 211 80: CONECT 210 211 80: CONECT 211 212 80: CONECT 213 214 80: CONECT 214 215 217 80: CONECT 215 216 216 220 80: CONECT 217 218 219 80: CONECT 220 221 80: CONECT 221 222 80: CONECT 222 223 223 224 80: CONECT 224 225 80: CONECT 225 226 228 80: CONECT 226 227 227 230 80: CONECT 228 229 80: CONECT 230 231 80: CONECT 231 232 234 80: CONECT 232 233 233 238 80: CONECT 234 235 236 80: CONECT 236 237 80: CONECT 238 239 80: CONECT 239 240 242 80: CONECT 240 241 241 246 80: CONECT 242 243 244 80: CONECT 244 245 80: CONECT 246 247 80: CONECT 247 248 250 80: CONECT 248 249 249 254 80: CONECT 250 251 252 80: CONECT 252 253 80: CONECT 254 255 260 80: CONECT 255 256 258 80: CONECT 256 257 257 261 80: CONECT 258 259 80: CONECT 259 260 80: CONECT 261 262 80: CONECT 262 263 80: CONECT 263 264 264 265 80: CONECT 265 266 80: CONECT 266 267 269 80: CONECT 267 268 268 270 80: CONECT 270 271 80: CONECT 271 272 274 80: CONECT 272 273 273 277 80: CONECT 274 275 276 80: CONECT 277 278 80: CONECT 278 279 281 80: CONECT 279 280 280 283 80: CONECT 281 282 80: CONECT 283 284 289 80: CONECT 284 285 287 80: CONECT 285 286 286 290 80: CONECT 287 288 80: CONECT 288 289 80: CONECT 290 291 80: CONECT 291 292 80: CONECT 292 293 293 294 80: CONECT 294 295 80: CONECT 295 296 298 80: CONECT 296 297 297 302 80: CONECT 298 299 80: CONECT 299 300 300 301 80: CONECT 302 303 80: CONECT 303 304 306 80: CONECT 304 305 305 314 80: CONECT 306 307 80: CONECT 307 308 308 309 80: CONECT 308 310 80: CONECT 309 311 311 80: CONECT 310 312 312 80: CONECT 311 312 80: CONECT 312 313 80: CONECT 314 315 80: CONECT 315 316 318 80: CONECT 316 317 317 319 80: CONECT 319 320 80: CONECT 320 321 323 80: CONECT 321 322 322 327 80: CONECT 323 324 80: CONECT 324 325 325 326 80: END 80: 80: Sequence: GREG 80: HELM: PEPTIDE1{G.R.E.G}$$$$ 80: Smiles: N=C(N)NCCC[C@H](NC(=O)CN)C(=O)N[C@@H](CCC(=O)O)C(=O)NCC(=O)O 80: PDB: 80: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 23 OE1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 24 OE2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 80: CONECT 1 2 80: CONECT 2 3 80: CONECT 3 4 4 5 80: CONECT 5 6 80: CONECT 6 7 9 80: CONECT 7 8 8 16 80: CONECT 9 10 80: CONECT 10 11 80: CONECT 11 12 80: CONECT 12 13 80: CONECT 13 14 14 15 80: CONECT 16 17 80: CONECT 17 18 20 80: CONECT 18 19 19 25 80: CONECT 20 21 80: CONECT 21 22 80: CONECT 22 23 23 24 80: CONECT 25 26 80: CONECT 26 27 80: CONECT 27 28 28 29 80: END 80: 80: Sequence: CYIQNCPLG 80: HELM: PEPTIDE1{C.Y.I.Q.N.C.P.L.G.[am]}$PEPTIDE1,PEPTIDE1,1:R3-6:R3$$$ 80: Smiles: CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2ccc(O)cc2)NC(=O)[C@@H](N)CSSC[C@@H](C(=O)N2CCC[C@H]2C(=O)N[C@@H](CC(C)C)C(=O)NCC(N)=O)NC(=O)[C@H](CC(N)=O)NC(=O)[C@H](CCC(N)=O)NC1=O 80: PDB: 80: ATOM 1 N CYS A 1 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 2 CA CYS A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 3 C CYS A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 4 O CYS A 1 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 5 CB CYS A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 6 SG CYS A 1 0.000 0.000 0.000 1.00 0.00 S 80: ATOM 7 N TYR A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 8 CA TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 9 C TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 10 O TYR A 2 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 11 CB TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 12 CG TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 13 CD1 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 14 CD2 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 15 CE1 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 16 CE2 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 17 CZ TYR A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 18 OH TYR A 2 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 19 N ILE A 3 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 20 CA ILE A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 21 C ILE A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 22 O ILE A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 23 CB ILE A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 24 CG1 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 25 CG2 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 26 CD1 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 27 N GLN A 4 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 28 CA GLN A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 29 C GLN A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 30 O GLN A 4 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 31 CB GLN A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 32 CG GLN A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 33 CD GLN A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 34 OE1 GLN A 4 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 35 NE2 GLN A 4 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 36 N ASN A 5 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 37 CA ASN A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 38 C ASN A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 39 O ASN A 5 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 40 CB ASN A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 41 CG ASN A 5 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 42 OD1 ASN A 5 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 43 ND2 ASN A 5 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 44 N CYS A 6 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 45 CA CYS A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 46 C CYS A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 47 O CYS A 6 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 48 CB CYS A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 49 SG CYS A 6 0.000 0.000 0.000 1.00 0.00 S 80: ATOM 50 N PRO A 7 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 51 CA PRO A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 52 C PRO A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 53 O PRO A 7 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 54 CB PRO A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 55 CG PRO A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 56 CD PRO A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 57 N LEU A 8 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 58 CA LEU A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 59 C LEU A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 60 O LEU A 8 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 61 CB LEU A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 62 CG LEU A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 63 CD1 LEU A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 64 CD2 LEU A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 65 N GLY A 9 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 66 CA GLY A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 67 C GLY A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 68 O GLY A 9 0.000 0.000 0.000 1.00 0.00 O 80: HETATM 69 N NH2 A 10 0.000 0.000 0.000 1.00 0.00 N 80: CONECT 1 2 80: CONECT 2 3 5 80: CONECT 3 4 4 7 80: CONECT 5 6 80: CONECT 6 49 80: CONECT 7 8 80: CONECT 8 9 11 80: CONECT 9 10 10 19 80: CONECT 11 12 80: CONECT 12 13 13 14 80: CONECT 13 15 80: CONECT 14 16 16 80: CONECT 15 17 17 80: CONECT 16 17 80: CONECT 17 18 80: CONECT 19 20 80: CONECT 20 21 23 80: CONECT 21 22 22 27 80: CONECT 23 24 25 80: CONECT 25 26 80: CONECT 27 28 80: CONECT 28 29 31 80: CONECT 29 30 30 36 80: CONECT 31 32 80: CONECT 32 33 80: CONECT 33 34 34 35 80: CONECT 36 37 80: CONECT 37 38 40 80: CONECT 38 39 39 44 80: CONECT 40 41 80: CONECT 41 42 42 43 80: CONECT 44 45 80: CONECT 45 46 48 80: CONECT 46 47 47 50 80: CONECT 48 49 80: CONECT 50 51 56 80: CONECT 51 52 54 80: CONECT 52 53 53 57 80: CONECT 54 55 80: CONECT 55 56 80: CONECT 57 58 80: CONECT 58 59 61 80: CONECT 59 60 60 65 80: CONECT 61 62 80: CONECT 62 63 64 80: CONECT 65 66 80: CONECT 66 67 80: CONECT 67 68 68 69 80: END 80: 80: Sequence: LfPVXLfPVX 80: HELM: PEPTIDE1{L.[dF].P.V.[Orn].L.[dF].P.V.[Orn]}$PEPTIDE1,PEPTIDE1,10:R2-1:R1$$$ 80: Smiles: CC(C)C[C@@H]1NC(=O)[C@H](CCCN)NC(=O)[C@H](C(C)C)NC(=O)[C@@H]2CCCN2C(=O)[C@@H](Cc2ccccc2)NC(=O)[C@H](CC(C)C)NC(=O)[C@H](CCCN)NC(=O)[C@H](C(C)C)NC(=O)[C@@H]2CCCN2C(=O)[C@@H](Cc2ccccc2)NC1=O 80: PDB: 80: ATOM 1 N LEU A 1 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 2 CA LEU A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 3 C LEU A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 4 O LEU A 1 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 5 CB LEU A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 6 CG LEU A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 7 CD1 LEU A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 8 CD2 LEU A 1 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 9 N DPN A 2 0.000 0.000 0.000 1.00 0.00 N 80: HETATM 10 CA DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 11 C DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 12 O DPN A 2 0.000 0.000 0.000 1.00 0.00 O 80: HETATM 13 CB DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 14 CG DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 15 CD1 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 16 CD2 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 17 CE1 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 18 CE2 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 19 CZ DPN A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 20 N PRO A 3 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 21 CA PRO A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 22 C PRO A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 23 O PRO A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 24 CB PRO A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 25 CG PRO A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 26 CD PRO A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 27 N VAL A 4 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 28 CA VAL A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 29 C VAL A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 30 O VAL A 4 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 31 CB VAL A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 32 CG1 VAL A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 33 CG2 VAL A 4 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 34 N ORN A 5 0.000 0.000 0.000 1.00 0.00 N 80: HETATM 35 CA ORN A 5 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 36 C ORN A 5 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 37 O ORN A 5 0.000 0.000 0.000 1.00 0.00 O 80: HETATM 38 CB ORN A 5 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 39 CG ORN A 5 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 40 CD ORN A 5 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 41 NE ORN A 5 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 42 N LEU A 6 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 43 CA LEU A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 44 C LEU A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 45 O LEU A 6 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 46 CB LEU A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 47 CG LEU A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 48 CD1 LEU A 6 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 49 CD2 LEU A 6 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 50 N DPN A 7 0.000 0.000 0.000 1.00 0.00 N 73/246 Test #79: testMol2ToMol .......................... Passed 0.06 sec test 81 Start 81: testExtendedStereoParsing 81: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testExtendedStereoParsing 81: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 81: Test timeout computed to be: 7200 80: HETATM 51 CA DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 52 C DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 53 O DPN A 7 0.000 0.000 0.000 1.00 0.00 O 80: HETATM 54 CB DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 55 CG DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 56 CD1 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 57 CD2 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 58 CE1 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 59 CE2 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 60 CZ DPN A 7 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 61 N PRO A 8 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 62 CA PRO A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 63 C PRO A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 64 O PRO A 8 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 65 CB PRO A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 66 CG PRO A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 67 CD PRO A 8 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 68 N VAL A 9 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 69 CA VAL A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 70 C VAL A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 71 O VAL A 9 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 72 CB VAL A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 73 CG1 VAL A 9 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 74 CG2 VAL A 9 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 75 N ORN A 10 0.000 0.000 0.000 1.00 0.00 N 80: HETATM 76 CA ORN A 10 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 77 C ORN A 10 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 78 O ORN A 10 0.000 0.000 0.000 1.00 0.00 O 80: HETATM 79 CB ORN A 10 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 80 CG ORN A 10 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 81 CD ORN A 10 0.000 0.000 0.000 1.00 0.00 C 80: HETATM 82 NE ORN A 10 0.000 0.000 0.000 1.00 0.00 N 80: CONECT 1 2 77 80: CONECT 2 3 5 80: CONECT 3 4 4 9 80: CONECT 5 6 80: CONECT 6 7 8 80: CONECT 9 10 80: CONECT 10 11 13 80: CONECT 11 12 12 20 80: CONECT 13 14 80: CONECT 14 15 15 16 80: CONECT 15 17 80: CONECT 16 18 18 80: CONECT 17 19 19 80: CONECT 18 19 80: CONECT 20 21 26 80: CONECT 21 22 24 80: CONECT 22 23 23 27 80: CONECT 24 25 80: CONECT 25 26 80: CONECT 27 28 80: CONECT 28 29 31 80: CONECT 29 30 30 34 80: CONECT 31 32 33 80: CONECT 34 35 80: CONECT 35 36 38 80: CONECT 36 37 37 42 80: CONECT 38 39 80: CONECT 39 40 80: CONECT 40 41 80: CONECT 42 43 80: CONECT 43 44 46 80: CONECT 44 45 45 50 80: CONECT 46 47 80: CONECT 47 48 49 80: CONECT 50 51 80: CONECT 51 52 54 80: CONECT 52 53 53 61 80: CONECT 54 55 80: CONECT 55 56 56 57 80: CONECT 56 58 80: CONECT 57 59 59 80: CONECT 58 60 60 80: CONECT 59 60 80: CONECT 61 62 67 80: CONECT 62 63 65 80: CONECT 63 64 64 68 80: CONECT 65 66 80: CONECT 66 67 80: CONECT 68 69 80: CONECT 69 70 72 80: CONECT 70 71 71 75 80: CONECT 72 73 74 80: CONECT 75 76 80: CONECT 76 77 79 80: CONECT 77 78 78 80: CONECT 79 80 80: CONECT 80 81 80: CONECT 81 82 80: END 80: 80: Sequence: GREG 80: HELM: PEPTIDE1{G.R.E.G}$$$$ 80: Smiles: N=C(N)NCCCC(NC(=O)CN)C(=O)NC(CCC(=O)O)C(=O)NCC(=O)O 80: PDB: 80: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 23 OD1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 24 OD2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 80: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 80: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 80: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 80: CONECT 1 2 80: CONECT 2 3 80: CONECT 3 4 4 5 80: CONECT 5 6 80: CONECT 6 7 9 80: CONECT 7 8 8 16 80: CONECT 9 10 80: CONECT 10 11 80: CONECT 11 12 80: CONECT 12 13 80: CONECT 13 14 14 15 80: CONECT 16 17 80: CONECT 17 18 20 80: CONECT 18 19 19 25 80: CONECT 20 21 80: CONECT 21 22 80: CONECT 22 23 23 24 80: CONECT 25 26 80: CONECT 26 27 80: CONECT 27 28 28 29 80: END 80: 74/246 Test #80: testSequence ........................... Passed 0.06 sec test 82 Start 82: fileParsersCatchTest 82: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 82: Test timeout computed to be: 7200 75/246 Test #81: testExtendedStereoParsing .............. Passed 0.03 sec test 83 Start 83: macromolsCatchTest 83: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/macromolsCatchTest 83: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 83: Test timeout computed to be: 7200 82: Randomness seeded to: 3578327361 82: [05:15:52] SGroup SAP line too short: 'M SAP 1 1 8' on line 29 82: [05:15:52] SGroup SAP line too short: 'M SAP 1 1 8' on line 28 82: [05:15:52] Could not infer missing lvIdx on malformed SAP line for SGroup 1 82: [05:15:52] SGroup 1 is invalid and will be ignored 82: [05:15:52] SGroup SAP line too short: 'M SAP 1 1 8' on line 28 82: [05:15:52] Could not infer missing lvIdx on malformed SAP line for SGroup 1 82: [05:15:52] SGroup 1 is invalid and will be ignored 82: [05:15:52] SGroup SAP line too short: 'M SAP 1 1 8' on line 35 82: [05:15:52] SGroup SAP line too short: 'M SAP 2 1 12' on line 39 82: [05:15:52] SGroup SAP line too short: 'M SAP 1 1 8' on line 34 82: [05:15:52] SGroup SAP line too short: 'M SAP 2 1 12' on line 38 82: [05:15:52] Could not infer missing lvIdx on malformed SAP line for SGroup 1 82: [05:15:52] SGroup 1 is invalid and will be ignored 82: [05:15:52] SGroup SAP line too short: 'M SAP 1 1 8' on line 34 82: [05:15:52] SGroup SAP line too short: 'M SAP 2 1 12' on line 39 82: [05:15:52] Could not infer missing lvIdx on malformed SAP line for SGroup 1 82: [05:15:52] SGroup 1 is invalid and will be ignored 82: [05:15:52] SGroup 3 referenced on line 40 not found. 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: no bonds 82: Violation occurred on line 181 in file ./Code/GraphMol/SubstanceGroup.cpp 82: Failed Expression: !d_bonds.empty() 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SGroupParsing::ParseSGroupV2000SBVLine(std::map, std::allocator > >&, RDKit::RWMol*, std::__cxx11::basic_string, std::allocator > const&, unsigned int, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 4# 0x0000FFFF8E9E07E0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# 0x0000AAAAB1748478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 8# 0x0000AAAAB1719E84 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 16# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] SGroup 3 referenced on line 40 not found. 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: no bonds 82: Violation occurred on line 181 in file ./Code/GraphMol/SubstanceGroup.cpp 82: Failed Expression: !d_bonds.empty() 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SGroupParsing::ParseSGroupV2000SBVLine(std::map, std::allocator > >&, RDKit::RWMol*, std::__cxx11::basic_string, std::allocator > const&, unsigned int, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 4# 0x0000FFFF8E9E07E0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# 0x0000AAAAB1719F08 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 8# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 15# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 16# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] no bonds 82: [05:15:52] SGroup 1 is invalid and will be ignored 82: [05:15:52] SGroup line too short: 'M SBV 1 6' on line 42 82: [05:15:52] SGroup 1 is invalid and will be ignored 82: [05:15:52] SGroup line too short: 'M SBL 2 3 9 10' on line 46 82: [05:15:52] SGroup 2 is invalid and will be ignored 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_bondBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseSGroupV2000VectorDataLine(std::map, std::allocator > >&, RDKit::RWMol*, std::__cxx11::basic_string, std::allocator > const&, unsigned int, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E0724 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# 0x0000AAAAB1748478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB171A6E4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_bondBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseSGroupV2000VectorDataLine(std::map, std::allocator > >&, RDKit::RWMol*, std::__cxx11::basic_string, std::allocator > const&, unsigned int, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E0724 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# 0x0000AAAAB171A754 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 16# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] bookmark not found 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bond is not part of the SubstanceGroup 82: Violation occurred on line 200 in file ./Code/GraphMol/SubstanceGroup.cpp 82: Failed Expression: std::find(d_bonds.begin(), d_bonds.end(), bondIdx) != d_bonds.end() 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::SubstanceGroup::getBondType(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseSGroupV2000SBVLine(std::map, std::allocator > >&, RDKit::RWMol*, std::__cxx11::basic_string, std::allocator > const&, unsigned int, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E07E0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# 0x0000AAAAB171A754 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 16# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] bond is not part of the SubstanceGroup 82: [05:15:52] SGroup 2 is invalid and will be ignored 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_atomBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseSGroupV2000VectorDataLine(std::map, std::allocator > >&, RDKit::RWMol*, std::__cxx11::basic_string, std::allocator > const&, unsigned int, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E0724 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# 0x0000AAAAB1748478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB171A994 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_atomBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseSGroupV2000VectorDataLine(std::map, std::allocator > >&, RDKit::RWMol*, std::__cxx11::basic_string, std::allocator > const&, unsigned int, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E0724 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# 0x0000AAAAB171AA04 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 16# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] bookmark not found 82: [05:15:52] Neither beginning nor ending atoms of bond 9 is in this SubstanceGroup. 82: [05:15:52] SGroup 2 is invalid and will be ignored 82: [05:15:52] WARNING: final character of V3000 array is not ')' 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_bondBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseV3000ParseLabel(std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_stringstream, std::allocator >&, std::vector, std::allocator >, std::allocator, std::allocator > > >&, unsigned int, RDKit::SubstanceGroup&, unsigned long, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB1718920 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] WARNING: final character of V3000 array is not ')' 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_bondBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseV3000ParseLabel(std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_stringstream, std::allocator >&, std::vector, std::allocator >, std::allocator, std::allocator > > >&, unsigned int, RDKit::SubstanceGroup&, unsigned long, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB17189A4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] bookmark not found 82: [05:15:52] SGroup 1 is invalid and will be ignored 82: [05:15:52] WARNING: final character of V3000 array is not ')' 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_atomBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseV3000ParseLabel(std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_stringstream, std::allocator >&, std::vector, std::allocator >, std::allocator, std::allocator > > >&, unsigned int, RDKit::SubstanceGroup&, unsigned long, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB1748478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB1718C04 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 17# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 19# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] WARNING: final character of V3000 array is not ')' 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_atomBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseV3000ParseLabel(std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_stringstream, std::allocator >&, std::vector, std::allocator >, std::allocator, std::allocator > > >&, unsigned int, RDKit::SubstanceGroup&, unsigned long, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB1718C88 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] bookmark not found 82: [05:15:52] SGroup 1 is invalid and will be ignored 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_bondBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseV3000ParseLabel(std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_stringstream, std::allocator >&, std::vector, std::allocator >, std::allocator, std::allocator > > >&, unsigned int, RDKit::SubstanceGroup&, unsigned long, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB1748478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB1718EE4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 17# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 19# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_bondBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseV3000ParseLabel(std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_stringstream, std::allocator >&, std::vector, std::allocator >, std::allocator, std::allocator > > >&, unsigned int, RDKit::SubstanceGroup&, unsigned long, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB1718F68 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] bookmark not found 82: [05:15:52] SGroup 2 is invalid and will be ignored 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_atomBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseV3000ParseLabel(std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_stringstream, std::allocator >&, std::vector, std::allocator >, std::allocator, std::allocator > > >&, unsigned int, RDKit::SubstanceGroup&, unsigned long, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB1748478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB17191C4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 17# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 19# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: bookmark not found 82: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: (lu != d_atomBookmarks.end()) 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 4# RDKit::SGroupParsing::ParseV3000ParseLabel(std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_stringstream, std::allocator >&, std::vector, std::allocator >, std::allocator, std::allocator > > >&, unsigned int, RDKit::SubstanceGroup&, unsigned long, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB1719248 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] bookmark not found 82: [05:15:52] SGroup 2 is invalid and will be ignored 82: [05:15:52] Explicit valence for atom # 2 O, 3, is greater than permitted 82: [05:15:52] Explicit valence for atom # 1 O, 3, is greater than permitted 82: [05:15:52] Explicit valence for atom # 1 C, 5, is greater than permitted 82: [05:15:52] sanitize [05:15:52] UNK: [05:15:52] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 82: [05:15:52] skipping block at line 7: 'BEGIN ATOM' 82: ATOM 1 CHLO CHL 0 0.000 0.000 0.000 1.00 0.00 CL 82: END 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: no stream 82: Violation occurred on line 133 in file ./Code/GraphMol/FileParsers/SDMolSupplier.cpp 82: Failed Expression: dp_inStream 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::v2::FileParsers::SDMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000AAAAB174F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 4# 0x0000AAAAB170FBEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 5# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 6# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 7# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 8# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 13# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: no stream 82: Violation occurred on line 187 in file ./Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp 82: Failed Expression: dp_inStream 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::v2::FileParsers::ForwardSDMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000AAAAB174F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 4# 0x0000AAAAB170FD80 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 5# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 6# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 7# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 8# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 13# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: no stream 82: Violation occurred on line 409 in file ./Code/GraphMol/FileParsers/SmilesMolSupplier.cpp 82: Failed Expression: dp_inStream 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::v2::FileParsers::SmilesMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000AAAAB174F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 4# 0x0000AAAAB17100A4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 5# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 6# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 7# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 8# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 13# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: no stream 82: Violation occurred on line 264 in file ./Code/GraphMol/FileParsers/TDTMolSupplier.cpp 82: Failed Expression: dp_inStream 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::v2::FileParsers::TDTMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000AAAAB174F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 4# 0x0000AAAAB1710320 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 5# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 6# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 7# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 8# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 13# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: no stream 82: Violation occurred on line 593 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 82: Failed Expression: dp_sInStream != nullptr 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::v2::FileParsers::MaeMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000AAAAB174F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 4# 0x0000AAAAB1710504 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 5# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 6# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 7# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 8# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 13# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] Found a SCD/SED line with missing/empty SDT specification at line 21 82: [05:15:52] Found a SCD/SED line with missing/empty SDT specification at line 20 82: [05:15:52] BEGIN SGROUP line not found on line 14 82: [05:15:52] Unhandled CTAB feature: 'Unsupported SGroup type '' on line 18'. Molecule skipped. 82: [05:15:52] END SGROUP line not found on line 19 82: [05:15:52] END SGROUP line not found on line 21 82: [05:15:52] MRV_COORDINATE_BOND_TYPE SGroup with value 0 does not reference a query bond, ignoring. 82: [05:15:52] MRV_COORDINATE_BOND_TYPE SGroup with value 1 does not reference a query bond, ignoring. 82: [05:15:52] 82: 82: **** 82: Range Error 82: idx 82: Violation occurred on line 329 in file ./Code/GraphMol/ROMol.cpp 82: Failed Expression: 99 < 9 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::ROMol::getBondWithIdx(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 82: 3# 0x0000FFFF8E9EE930 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 4# 0x0000FFFF8E9EF590 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# RDKit::FileParserUtils::finishMolProcessing(RDKit::RWMol*, bool, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# 0x0000AAAAB17491D8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB170B5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] molecule does not contain a bond matching the MRV_COORDINATE_BOND_TYPE SGroup for bond 99, ignoring. 82: [05:15:52] Multiple ATTCHPT values for atom 2 on line 9 82: [05:15:52] Found a SCD/SED line with missing/empty SDT specification at line 12 82: [05:15:52] SMARTS Parse Error: syntax error while parsing: [#6;R 82: [05:15:52] SMARTS Parse Error: check for mistakes around position 5: 82: [05:15:52] [#6;R 82: [05:15:52] ~~~~^ 82: [05:15:52] SMARTS Parse Error: Failed parsing SMARTS '[#6;R' for input: '[#6;R' 82: [05:15:52] SMARTS for SMARTSQ '[#6;R' could not be parsed or has no atoms. Ignoring it. 82: [05:15:52] Skipping empty SMARTS value for SMARTSQ. 82: [05:15:52] unrecognized QUERYOP '>' for SMARTSQ. Query ignored. 82: [05:15:52] Found a SCD/SED line with missing/empty SDT specification at line 12 82: [05:15:52] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 82: [05:15:52] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 82: [05:15:52] WARNING: Skipping property bar because the value includes an illegal blank line 82: [05:15:52] WARNING: Skipping property baz because the value includes an illegal blank line 82: [05:15:52] WARNING: Skipping property bletch 82: nope because the name includes a newline 82: [05:15:52] WARNING: Skipping property bletch 82: nope2 because the name includes a newline 82: [05:15:52] 82: 82: **** 82: Post-condition Violation 82: Element 'QQQ' not found 82: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 82: Failed Expression: anum > -1 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000FFFF8E9D04F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 4# 0x0000FFFF8E9E524C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E71C4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB16E91D8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Post-condition Violation 82: Element 'QQQ' not found 82: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 82: Failed Expression: anum > -1 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000FFFF8E9D04F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 4# 0x0000FFFF8E9E524C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E71C4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV3000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB16E8B30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Post-condition Violation 82: Element 'QQQ' not found 82: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 82: Failed Expression: anum > -1 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000FFFF8E9D04F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 4# 0x0000FFFF8E9E2340 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E31F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB16E9190 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] 82: 82: **** 82: Post-condition Violation 82: Element 'QQQ' not found 82: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 82: Failed Expression: anum > -1 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# 0x0000FFFF8E9D04F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 4# 0x0000FFFF8E9E2340 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 5# 0x0000FFFF8E9E31F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 6# RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 9# 0x0000AAAAB16E8EAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 12# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 13# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 14# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 15# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 16# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 17# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 18# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] atom 3 has a negative isotope value. line: 15 82: [05:15:52] Ignoring invalid chirality label: '2_bad_chirality' 82: [05:15:52] 82: 82: **** 82: Pre-condition Violation 82: no input stream 82: Violation occurred on line 560 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 82: Failed Expression: dp_sInStream 82: ---------- 82: Stacktrace: 82: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 82: 2# RDKit::v2::FileParsers::MaeMolSupplier::init() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 3# RDKit::v2::FileParsers::MaeMolSupplier::reset() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 82: 4# 0x0000AAAAB1728834 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 5# 0x0000AAAAB179130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 6# 0x0000AAAAB1791CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 7# 0x0000AAAAB17920F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 8# 0x0000AAAAB17646F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 9# 0x0000AAAAB1764C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 10# 0x0000AAAAB16DD0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: 11# 0x0000FFFF8DF4255C in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 82: 13# 0x0000AAAAB16DD170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 82: ---------- 82: **** 82: 82: [05:15:52] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 82: [05:15:52] WARNING: atom 1 in input Maestro file has atomic number '0', which is reserved for internal use, and not allowed in inputs. The atom will be ignored.[05:15:52] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 82: [05:15:52] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 82: [05:15:52] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 82: [05:15:52] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [05:15:52] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 71: [05:15:52] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 71: [05:15:52] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 71: [05:15:52] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 71: [05:15:52] deprecated group abbreviation ignored on line 24 71: smiles: [1*]c1c([2*])c([3*])c([4*])c(-c2c([9*])oc3c([8*])c([7*])c([6*])c([5*])c3c2=O)c1[10*] 71: [05:15:52] 71: 71: **** 71: Post-condition Violation 71: Element 'Mv' not found 71: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 71: Failed Expression: anum > -1 71: ---------- 71: Stacktrace: 71: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 3# 0x0000FFFFB78704F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 4# 0x0000FFFFB7882340 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 5# 0x0000FFFFB78831F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 6# RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 8# RDKit::v2::FileParsers::MolFromMolFile(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 71: 9# 0x0000AAAAC215B7AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 10# 0x0000AAAAC21CC5BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 11# 0x0000AAAAC213602C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 12# 0x0000FFFFB6EE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 71: 13# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 71: 14# 0x0000AAAAC2136230 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: ---------- 71: **** 71: 71: [05:15:52] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 71: [05:15:52] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 71: ---------------------------------- 71: ---------------------------------- 71: [05:15:52] 71: 71: **** 71: Pre-condition Violation 71: rlabel out of range for MDL files 71: Violation occurred on line 868 in file ./Code/GraphMol/Atom.cpp 71: Failed Expression: rlabel >= 0 && rlabel < 100 71: ---------- 71: Stacktrace: 71: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 2# RDKit::setAtomRLabel(RDKit::Atom*, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 71: 3# 0x0000AAAAC213CED8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 4# 0x0000AAAAC21CC61C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 5# 0x0000AAAAC213602C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: 6# 0x0000FFFFB6EE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 71: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 71: 8# 0x0000AAAAC2136230 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 71: ---------- 71: **** 71: 71: [05:15:52] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 71: [05:15:53] SMARTS Parse Error: syntax error while parsing: MyDogHasFleas 71: [05:15:53] SMARTS Parse Error: check for mistakes around position 1: 71: [05:15:53] MyDogHasFleas 71: [05:15:53] ^ 71: [05:15:53] SMARTS Parse Error: Failed parsing SMARTS 'MyDogHasFleas' for input: 'MyDogHasFleas' 71: [05:15:53] Empty atom list: 'M ALS 1 0 F' on line 8. 76/246 Test #71: fileParsersTest1 ....................... Passed 3.38 sec test 84 Start 84: testPropertyLists 84: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testPropertyLists 84: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 84: Test timeout computed to be: 7200 84: Randomness seeded to: 3310483375 84: =============================================================================== 84: All tests passed (95 assertions in 4 test cases) 84: 77/246 Test #84: testPropertyLists ...................... Passed 0.05 sec test 85 Start 85: XYZFileParserCatchTest 85: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/XYZFileParserCatchTest 85: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 85: Test timeout computed to be: 7200 85: Randomness seeded to: 610751108 85: =============================================================================== 85: All tests passed (100 assertions in 2 test cases) 85: 78/246 Test #85: XYZFileParserCatchTest ................. Passed 0.05 sec test 86 Start 86: cdxmlParserCatchTest 86: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/cdxmlParserCatchTest 86: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 86: Test timeout computed to be: 7200 86: Randomness seeded to: 2274044372 86: [05:15:53] Invalid or missing fragment id from CDXML fragment, assigning new one... 86: [05:15:53] Explicit valence for atom # 3 N, 4, is greater than permitted 86: [05:15:53] CDXMLParser: failed sanitizing skipping fragment 32 86: [05:15:53] Bad bond in CDXML skipping fragment 58... 86: [05:15:53] Invalid or missing fragment id from CDXML fragment, assigning new one... 86: [05:15:53] Bad bond in CDXML skipping fragment 58... 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] WARNING: not removing hydrogen atom without neighbors 86: [05:15:53] CDXMLParser: Schema 80180 step 80181 ReactionStepAgents reaction fragment 64603 not found in document. 86: [05:15:53] Incomplete atom labelling, cannot make bond 86: [05:15:53] Incomplete atom labelling, cannot make bond 86: [05:15:53] Incomplete atom labelling, cannot make bond 86: [05:15:53] Failed to parse XML fragment 5 node: n attribute: id: mydoghasfleas 86: [05:15:53] Failed to parse XML fragment 5 node: n attribute: id: mydoghasfleas 86: [05:15:53] Failed to parse XML fragment 5 node: b attribute: Order: slartibartfast 86: [05:15:53] Failed to parse XML fragment 5 node: b attribute: Order: 5 86: [05:15:53] Invalid or missing fragment id from CDXML fragment, assigning new one... 86: =============================================================================== 86: All tests passed (264 assertions in 7 test cases) 86: 79/246 Test #86: cdxmlParserCatchTest ................... Passed 0.22 sec test 87 Start 87: molfileStereoCatchTest 87: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/molfileStereoCatchTest 87: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 87: Test timeout computed to be: 7200 87: Randomness seeded to: 2248682211 87: [05:15:53] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 87: [05:15:53] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 87: [05:15:53] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 87: [05:15:53] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 87: =============================================================================== 87: All tests passed (142 assertions in 6 test cases) 87: 80/246 Test #87: molfileStereoCatchTest ................. Passed 0.05 sec test 88 Start 88: connectTheDotsTest 88: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/connectTheDotsTest 88: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 88: Test timeout computed to be: 7200 88: Randomness seeded to: 3489479574 88: [05:15:53] WARNING: not removing hydrogen atom without neighbors 88: [05:15:53] WARNING: not removing hydrogen atom without neighbors 88: [05:15:53] WARNING: not removing hydrogen atom without neighbors 88: [05:15:53] WARNING: not removing hydrogen atom without neighbors 88: =============================================================================== 88: All tests passed (18 assertions in 2 test cases) 88: 81/246 Test #88: connectTheDotsTest ..................... Passed 0.04 sec test 89 Start 89: v2MolSuppliers 89: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/v2MolSuppliers 89: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 89: Test timeout computed to be: 7200 89: Randomness seeded to: 2899878316 89: [05:15:53] Ignoring invalid chirality label: '12_R_1_3_4_5' 89: [05:15:53] Ignoring invalid chirality label: '12_ANR_1_3_4_15' 89: [05:15:53] Ignoring invalid chirality label: '2_S_1_3_4' 89: [05:15:53] Ignoring invalid chirality label: '2_ANS_1_3_4_5_2' 89: =============================================================================== 89: All tests passed (24 assertions in 6 test cases) 89: 82/246 Test #89: v2MolSuppliers ......................... Passed 0.07 sec test 90 Start 90: v2FileParsersCatchTest 90: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/v2FileParsersCatchTest 90: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 90: Test timeout computed to be: 7200 90: Randomness seeded to: 2219265182 90: =============================================================================== 90: All tests passed (6 assertions in 1 test case) 90: 83/246 Test #90: v2FileParsersCatchTest ................. Passed 0.05 sec test 91 Start 91: atropisomersCatch 91: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/atropisomersCatch 91: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 91: Test timeout computed to be: 7200 91: Randomness seeded to: 1190457926 91: [05:15:53] The 2 defining bonds for an atropisomer are co-planar - atoms are: 3 5 91: [05:15:53] The 2 defining bonds for an atropisomer are co-planar - atoms are: 3 5 91: =============================================================================== 91: All tests passed (88 assertions in 3 test cases) 91: 84/246 Test #91: atropisomersCatch ...................... Passed 0.05 sec test 92 Start 92: multithreadedSupplierCatchTest 92: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/multithreadedSupplierCatchTest 92: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 92: Test timeout computed to be: 7200 92: Randomness seeded to: 362571367 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: [05:15:54] Explicit valence for atom # 9 N, 5, is greater than permitted 29: Checking against /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 92: [05:15:54] Explicit valence for atom # 3 Al, 6, is greater than permitted 92: [05:15:54] Explicit valence for atom # 4 Al, 6, is greater than permitted 92: [05:15:54] Explicit valence for atom # 10 Si, 6, is greater than permitted 29: All 191 tests passed 92: [05:15:54] Explicit valence for atom # 2 O, 4, is greater than permitted 92: [05:15:54] Explicit valence for atom # 3 Al, 6, is greater than permitted 92: [05:15:54] Explicit valence for atom # 3 Be, 4, is greater than permitted 92: [05:15:55] Explicit valence for atom # 27 P, 6, is greater than permitted 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_hypervalent.smi... 92: [05:15:55] Explicit valence for atom # 9 N, 5, is greater than permitted 92: [05:15:55] Explicit valence for atom # 3 Al, 6, is greater than permitted 92: [05:15:55] Explicit valence for atom # 4 Al, 6, is greater than permitted 92: [05:15:55] Explicit valence for atom # 10 Si, 6, is greater than permitted 92: [05:15:55] Explicit valence for atom # 2 O, 4, is greater than permitted 92: [05:15:55] Explicit valence for atom # 3 Al, 6, is greater than permitted 92: [05:15:55] Explicit valence for atom # 3 Be, 4, is greater than permitted 92: [05:15:55] Explicit valence for atom # 27 P, 6, is greater than permitted 92: =============================================================================== 92: All tests passed (21562 assertions in 3 test cases) 92: 85/246 Test #92: multithreadedSupplierCatchTest ......... Passed 1.93 sec test 93 Start 93: testSubstructMatch 93: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 93: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct 93: Test timeout computed to be: 7200 93: ----------------- Test 1 93: Done 93: 93: ----------------- Test 2 93: Done 93: 93: ----------------- Test 3 93: Done 93: 93: ----------------- Test 4 93: Done 93: 93: ----------------- Test 5 93: Done 93: 93: ----------------- Test 5 QueryRoot 93: Done 93: 93: ----------------- Test 6 (Issue71 related) 93: Done 93: 93: ----------------- Testing serial numbers on recursive queries 93: Done 93: 93: [05:15:55] ------------------------------------- 93: [05:15:55] Test multithreading 93: reading molecules 93: hits: 1111110111111111111111011111100011011011111101010111011110111101111111111111111111111011111011111110 93: processing 93: launch :0 93: launch :1 93: launch :2 93: launch :3 93: done 93: hits2: 1111110111111111111111011111100011011011111101010111011110111101111111111111111111111011111011111110 93: processing2 93: launch2 :0 93: launch2 :1 93: launch2 :2 93: launch2 :3 93: done 93: preprocessing 3 93: hits3: 1110100011001000010011100110100011011000010101000100110010101111011100101000001111110000010100100110 93: processing3 93: launch3 :0 93: launch3 :1 93: launch3 :2 93: launch3 :3 93: done 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test GitHub issue 15 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test GitHub issue 409 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test chiral matching 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test GitHub issue 688: partially specified chiral substructure queries don't work properly 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test dative-bond matching 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test cis/trans matching 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test cis/trans matching part 2 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Testing Github #1389: Substructure matching with chirality failure when query is built from SMARTS 93: [05:15:56] done 93: [05:15:56] ------------------------------------- 93: [05:15:56] Testing matching E/Z against Cis/Trans stereo bonds 93: [05:15:56] 93: 93: **** 93: Pre-condition Violation 93: matches must not be empty 93: Violation occurred on line 43 in file ./Code/GraphMol/Substruct/SubstructUtils.cpp 93: Failed Expression: !matches.empty() 93: ---------- 93: Stacktrace: 93: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 93: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 93: 2# RDKit::detail::ScoreMatchesByDegreeOfCoreSubstitution::ScoreMatchesByDegreeOfCoreSubstitution(RDKit::ROMol const&, RDKit::ROMol const&, std::vector, std::allocator > >, std::allocator, std::allocator > > > > const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 93: 3# RDKit::getMostSubstitutedCoreMatch(RDKit::ROMol const&, RDKit::ROMol const&, std::vector, std::allocator > >, std::allocator, std::allocator > > > > const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 93: 4# 0x0000AAAAAD3ABC40 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 93: 5# 0x0000AAAAAD399C6C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 93: 6# 0x0000FFFFBCD9255C in /usr/lib/aarch64-linux-gnu/libc.so.6 93: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 93: 8# 0x0000AAAAAD399E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 93: ---------- 93: **** 93: 93: [05:15:56] 93: 93: **** 93: Pre-condition Violation 93: matches must not be empty 93: Violation occurred on line 43 in file ./Code/GraphMol/Substruct/SubstructUtils.cpp 93: Failed Expression: !matches.empty() 93: ---------- 93: Stacktrace: 93: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 93: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 93: 2# RDKit::detail::ScoreMatchesByDegreeOfCoreSubstitution::ScoreMatchesByDegreeOfCoreSubstitution(RDKit::ROMol const&, RDKit::ROMol const&, std::vector, std::allocator > >, std::allocator, std::allocator > > > > const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 93: 3# RDKit::sortMatchesByDegreeOfCoreSubstitution(RDKit::ROMol const&, RDKit::ROMol const&, std::vector, std::allocator > >, std::allocator, std::allocator > > > > const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 93: 4# 0x0000AAAAAD3AC1C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 93: 5# 0x0000AAAAAD399C6C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 93: 6# 0x0000FFFFBCD9255C in /usr/lib/aarch64-linux-gnu/libc.so.6 93: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 93: 8# 0x0000AAAAAD399E70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 93: ---------- 93: **** 93: 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test substructure matching with a pathological case for symmetric SSSR 93: [05:15:56] ------------------------------------- 93: [05:15:56] Test isAtomTerminalRGroupOrQueryHydrogen 86/246 Test #93: testSubstructMatch ..................... Passed 0.33 sec test 94 Start 94: substructTestCatch 94: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/substructTestCatch 94: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct 94: Test timeout computed to be: 7200 94: Randomness seeded to: 2110431055 94: =============================================================================== 94: All tests passed (262 assertions in 13 test cases) 94: 87/246 Test #94: substructTestCatch ..................... Passed 0.34 sec test 95 Start 95: testGenericGroups 95: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups/testGenericGroups 95: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups 95: Test timeout computed to be: 7200 95: Randomness seeded to: 376987684 95: =============================================================================== 95: All tests passed (11480 assertions in 38 test cases) 95: 88/246 Test #95: testGenericGroups ...................... Passed 0.53 sec test 96 Start 96: testReaction 96: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/testReaction 96: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions 96: Test timeout computed to be: 7200 96: smi: O=C1CNC(=O)CN1 96: 1: O=C1CNC(=O)CN1 96: 2: COOC 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: [Q:1][C:2][C:3](=[O:4])[O:5] 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 2: 96: [05:15:57] [Q:1][C:2][C:3](=[O:4])[O:5] 96: [05:15:57] ~^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '[Q:1][C:2][C:3](=[O:4])[O:5]' for input: '[Q:1][C:2][C:3](=[O:4])[O:5]' 96: O=C1CNC(=O)CN1 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] mapped atoms in the reactants were not mapped in the products. 96: unmapped numbers are: 4 96: [05:15:57] atom 0 in product 0 has multiple charge specifications. 96: mass: 15.0001 96: Oc1ccccn1 96: Oc1ccc[nH]1 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: ([C:1](=O)O.[C:2] 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 1: 96: [05:15:57] ([C:1](=O)O.[C:2] 96: [05:15:57] ^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '([C:1](=O)O.[C:2]' for input: '([C:1](=O)O.[C:2]' 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: ([C:2] 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 1: 96: [05:15:57] ([C:2] 96: [05:15:57] ^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '([C:2]' for input: '([C:2]' 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: [C:1](=O)O).[C:2] 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 11: 96: [05:15:57] [C:1](=O)O).[C:2] 96: [05:15:57] ~~~~~~~~~~^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=O)O).[C:2]' for input: '[C:1](=O)O).[C:2]' 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: [C:2]) 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 6: 96: [05:15:57] [C:2]) 96: [05:15:57] ~~~~~^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '[C:2])' for input: '[C:2])' 96: [05:15:57] SMILES Parse Error: syntax error while parsing: [Q:1][C:2][C:3](=[O:4])[O:5] 96: [05:15:57] SMILES Parse Error: check for mistakes around position 2: 96: [05:15:57] [Q:1][C:2][C:3](=[O:4])[O:5] 96: [05:15:57] ~^ 96: [05:15:57] SMILES Parse Error: Failed parsing SMILES '[Q:1][C:2][C:3](=[O:4])[O:5]' for input: '[Q:1][C:2][C:3](=[O:4])[O:5]' 96: [05:15:57] reactant 2 has no mapped atoms. 96: [05:15:57] >> Atoms within one molecule have different RXN roles. 96: [05:15:57] >> Fragment 0 not included in the reaction, atoms do not have a correct RXN role. 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: ([C:1][C:2] 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 1: 96: [05:15:57] ([C:1][C:2] 96: [05:15:57] ^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '([C:1][C:2]' for input: '([C:1][C:2]' 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: ([C:2] 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 1: 96: [05:15:57] ([C:2] 96: [05:15:57] ^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '([C:2]' for input: '([C:2]' 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: [C:1][C:2]) 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 11: 96: [05:15:57] [C:1][C:2]) 96: [05:15:57] ~~~~~~~~~~^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '[C:1][C:2])' for input: '[C:1][C:2])' 96: [05:15:57] SMARTS Parse Error: syntax error while parsing: [C:1]).[C:2] 96: [05:15:57] SMARTS Parse Error: check for mistakes around position 6: 96: [05:15:57] [C:1]).[C:2] 96: [05:15:57] ~~~~~^ 96: [05:15:57] SMARTS Parse Error: Failed parsing SMARTS '[C:1]).[C:2]' for input: '[C:1]).[C:2]' 96: [05:15:57] reactant 0 has no mapped atoms. 96: [05:15:57] reactant 1 has no mapped atoms. 96: [05:15:57] reactant 3 has no mapped atoms. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 5 found multiple times. 96: [05:15:57] product atom-mapping number 6 found multiple times. 96: [05:15:57] product atom-mapping number 7 found multiple times. 96: [05:15:57] product atom-mapping number 8 found multiple times. 96: [05:15:57] product atom-mapping number 12 found multiple times. 96: [05:15:57] product atom-mapping number 9 found multiple times. 96: [05:15:57] product atom-mapping number 10 found multiple times. 96: [05:15:57] product atom-mapping number 11 found multiple times. 96: [05:15:57] reactant 0 has no mapped atoms. 96: [05:15:57] reactant 1 has no mapped atoms. 96: [05:15:57] reactant 3 has no mapped atoms. 96: [05:15:57] reactant atom-mapping number 19 found multiple times. 96: [05:15:57] reactant atom-mapping number 25 found multiple times. 96: [05:15:57] reactant atom-mapping number 20 found multiple times. 96: [05:15:57] reactant atom-mapping number 21 found multiple times. 96: [05:15:57] reactant atom-mapping number 22 found multiple times. 96: [05:15:57] reactant atom-mapping number 23 found multiple times. 96: [05:15:57] reactant atom-mapping number 24 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: F[C@@](Cl)(Br)ONO[C@](F)(Cl)Br 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: F[C@](Cl)(Br)ONO[C@](F)(Cl)Br 96: [05:15:57] product atom-mapping number 5 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 5 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: F[C@@](Cl)(Br)ONO[C@](F)(Cl)Br 96: [05:15:57] product atom-mapping number 5 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 5 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: F[C@](Cl)(Br)ONO[C@](F)(Cl)Br 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: F[C@@](Cl)(Br)O[C@](F)(Cl)Br 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: F[C@](Cl)(Br)O[C@](F)(Cl)Br 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 4 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] mapped atoms in the reactants were not mapped in the products. 96: unmapped numbers are: 4 96: [05:15:57] product atom-mapping number 3 found multiple times. 96: [05:15:57] product atom-mapping number 2 found multiple times. 96: [05:15:57] product atom-mapping number 1 found multiple times. 96: [05:15:57] mapped atoms in the reactants were not mapped in the products. 96: unmapped numbers are: 4 96: [05:15:57] product atom-mapping number 6 not found in reactants. 96: [05:15:57] product atom-mapping number 7 not found in reactants. 96: [05:15:57] product atom-mapping number 8 not found in reactants. 96: [05:15:57] product atom-mapping number 7 not found in reactants. 96: [05:15:57] product atom-mapping number 8 not found in reactants. 96: [05:15:57] product atom-mapping number 9 not found in reactants. 96: [05:15:57] product atom-mapping number 10 not found in reactants. 96: [05:15:57] mapped atoms in the reactants were not mapped in the products. 96: unmapped numbers are: 6 96: [05:15:57] product atom-mapping number 7 not found in reactants. 96: [05:15:57] product atom-mapping number 8 not found in reactants. 96: [05:15:57] product atom-mapping number 9 not found in reactants. 96: [05:15:57] product atom-mapping number 10 not found in reactants. 96: [05:15:57] mapped atoms in the reactants were not mapped in the products. 96: unmapped numbers are: 6 96: smi1 [C:1][C:2][C:3]([O:4])([N:5])[Cl:6]>>[C:1][C:3]([C:2])([O:4])[N:5].[ClH:6] 96: smi2 [C:1][C:2][C:3]([O:4])([N:5])[Cl:6]>>[C:1][C:3]([C:2])([O:4])[N:5].[ClH:6] 96: [05:15:57] mapped atoms in the reactants were not mapped in the products. 96: unmapped numbers are: 7 8 9 10 11 12 13 14 15 16 96: [05:15:57] product atom-mapping number 17 not found in reactants. 96: [05:15:57] product atom-mapping number 18 not found in reactants. 96: [05:15:57] mapped atoms in the reactants were not mapped in the products. 96: unmapped numbers are: 12 96: [05:15:57] Reaction has explicit hydrogens, reactants will need explicit hydrogens (addHs) 96: [05:15:57] Reaction has explicit hydrogens, reactants will need explicit hydrogens (addHs) 96: 96: [05:15:57] Mismatched potential rlabels: 1 unmapped reactant dummy atom rlabels,0 unmappped product dummy atom rlabels 96: ------------- 96: CCOc1ccccc1 96: [05:15:57] reactant 0 has no mapped atoms. 96: [05:15:57] product 0 has no mapped atoms. 96: [05:15:57] WARNING: neither stereo atoms nor CIP codes found for double bond. Stereochemistry info will not be propagated to product. 89/246 Test #96: testReaction ........................... Passed 0.47 sec test 97 Start 97: testReactionFingerprints 97: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/testReactionFingerprints 97: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions 97: Test timeout computed to be: 7200 97: [05:15:57] ------------------------------------- 97: [05:15:57] Test Reaction StructuralFingerprint 97: [05:15:57] ------------------------------------- 97: [05:15:57] Test Reaction DifferenceFingerprint 90/246 Test #97: testReactionFingerprints ............... Passed 0.08 sec test 98 Start 98: testEnumeration 98: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/testEnumeration 98: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions 98: Test timeout computed to be: 7200 98: 30000000 30000000 76: [05:15:58] Finished: testSmiCorrectness() 76: [05:15:58] ----------------------------------------- 76: 76: [05:15:58] 76: ----------------------------------------- 76: [05:15:58] Spurious data before the first property will be ignored 76: [05:15:58] Property will be truncated after the first blank line 76: [05:15:58] Property will be truncated after the first blank line 76: [05:15:58] Property will be truncated after the first blank line 76: [05:15:58] Finished: testSDCorrectness() 76: [05:15:58] ----------------------------------------- 76: 76: [05:15:58] 76: ----------------------------------------- 76: [05:15:58] Finished: testThrowSDF() 76: [05:15:58] ----------------------------------------- 76: 76: [05:15:58] 76: ----------------------------------------- 76: [05:15:58] Finished: testThrowSmiles() 76: [05:15:58] ----------------------------------------- 76: 91/246 Test #76: testMultithreadedMolSupplier ........... Passed 7.25 sec test 99 Start 99: rxnTestCatch 99: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/rxnTestCatch 99: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions 99: Test timeout computed to be: 7200 99: Randomness seeded to: 533746748 99: [05:15:58] atom 0 in product 0 has multiple charge specifications. 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 34 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 36 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 38 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 40 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 42 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 87 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 89 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 91 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 93 99: [05:15:58] Found a SCD/SED line with missing/empty SDT specification at line 95 99: [05:15:58] mapped atoms in the reactants were not mapped in the products. 99: unmapped numbers are: 2 99: [05:15:58] mapped atoms in the reactants were not mapped in the products. 99: unmapped numbers are: 2 99: [05:15:58] SMARTS Parse Error: unclosed ring for input: 'CC1' 99: [05:15:58] SMILES Parse Error: unclosed ring for input: 'CC1' 99: [05:15:58] mapped atoms in the reactants were not mapped in the products. 99: unmapped numbers are: 2 99: [05:15:58] product atom-mapping number 2 not found in reactants. 99: [05:15:58] mapped atoms in the reactants were not mapped in the products. 99: unmapped numbers are: 2 99: [05:15:58] product atom-mapping number 2 not found in reactants. 99: [05:15:58] CX Extensions: Substance group hierarchy is not always preserved. 99: [05:15:58] CX Extensions: Substance group hierarchy is not always preserved. 99: [05:15:58] reactant 0 has no mapped atoms. 99: [05:15:58] product 0 has no mapped atoms. 99: [05:15:58] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 99: [05:15:58] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 99: [05:15:58] Explicit valence for atom # 1 O, 5, is greater than permitted 99: =============================================================================== 99: All tests passed (722 assertions in 30 test cases) 99: 92/246 Test #99: rxnTestCatch ........................... Passed 0.13 sec test 100 Start 100: pyChemReactions 100: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/testReactionWrapper.py" 100: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 100: Test timeout computed to be: 7200 100: ...[05:15:59] 100: 100: **** 100: Pre-condition Violation 100: getNumImplicitHs() called without preceding call to calcImplicitValence() 100: Violation occurred on line 301 in file ./Code/GraphMol/Atom.cpp 100: Failed Expression: d_implicitValence > -1 100: ---------- 100: Stacktrace: 100: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 100: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 100: 2# RDKit::Atom::getNumImplicitHs() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 3# RDKit::Atom::getTotalNumHs(bool) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 4# Queries::EqualityQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSmilesParse.so.1 100: 5# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 6# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 7# Queries::OrQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 8# RDKit::atomCompat(RDKit::Atom const*, RDKit::Atom const*, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 9# boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::IsFeasiblePair(unsigned int, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 10# bool boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::MatchAll, std::allocator > >, std::allocator, std::allocator > > > > >(unsigned int*, unsigned int*, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 11# bool boost::vf2_all, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor, std::vector, std::allocator > >, std::allocator, std::allocator > > > > >(boost::adjacency_list const&, boost::adjacency_list const&, RDKit::detail::AtomLabelFunctor&, RDKit::detail::BondLabelFunctor&, RDKit::MolMatchFinalCheckFunctor&, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 12# RDKit::detail::RecursiveMatcher(RDKit::ROMol const&, RDKit::ROMol const&, std::vector >&, std::map*, std::less, std::allocator*> > >&, RDKit::SubstructMatchParameters const&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 13# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 14# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 15# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 16# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 17# RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 18# RDKit::ReactionRunnerUtils::getReactantMatchesToTemplate(RDKit::ROMol const&, RDKit::ROMol const&, unsigned int, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemReactions.so.1 100: 19# RDKit::ReactionRunnerUtils::getReactantMatches(std::vector, std::allocator > > const&, RDKit::ChemicalReaction const&, std::vector, std::allocator > >, std::allocator, std::allocator > > > >, std::allocator, std::allocator > >, std::allocator, std::allocator > > > > > >&, unsigned int, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemReactions.so.1 100: 20# RDKit::run_Reactants(RDKit::ChemicalReaction const&, std::vector, std::allocator > > const&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemReactions.so.1 100: 21# RDKit::ChemicalReaction::runReactants(std::vector, std::allocator > >, unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemReactions.so.1 100: 22# _object* RDKit::RunReactants(RDKit::ChemicalReaction*, boost::python::tuple, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 100: 23# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 100: 24# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 25# 0x0000FFFF8E9A1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 26# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 27# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 100: 28# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 100: 29# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 100: 30# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 100: 31# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 100: 32# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 100: 33# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 100: 34# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 100: 35# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 36# 0x0000FFFF8CEB4200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 37# 0x0000FFFF8CEB419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 38# 0x0000FFFF8CEB4138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 39# 0x0000FFFF8CEB40C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 40# 0x0000FFFF8CEB4064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 41# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 100: 42# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 100: 43# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 100: 44# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 100: 45# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 46# 0x0000FFFF8E99E23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 47# _PyObject_MakeTpCall in /usr/bin/python3 100: 48# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 49# 0x000000000054AD18 in /usr/bin/python3 100: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 51# 0x000000000063D08C in /usr/bin/python3 100: 52# 0x00000000005BE294 in /usr/bin/python3 100: 53# _PyObject_MakeTpCall in /usr/bin/python3 100: 54# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 55# 0x000000000054AD18 in /usr/bin/python3 100: 56# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 57# 0x000000000063D08C in /usr/bin/python3 100: 58# 0x00000000005BE294 in /usr/bin/python3 100: 59# _PyObject_MakeTpCall in /usr/bin/python3 100: 60# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 61# 0x000000000054AD18 in /usr/bin/python3 100: 62# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 63# 0x000000000063D08C in /usr/bin/python3 100: 64# 0x00000000005BE294 in /usr/bin/python3 100: 65# _PyObject_MakeTpCall in /usr/bin/python3 100: 66# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 67# 0x0000000000516CD4 in /usr/bin/python3 100: 68# _PyObject_MakeTpCall in /usr/bin/python3 100: 69# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 70# PyEval_EvalCode in /usr/bin/python3 100: 71# 0x000000000065EE80 in /usr/bin/python3 100: 72# 0x000000000065A730 in /usr/bin/python3 100: 73# 0x000000000067EBA0 in /usr/bin/python3 100: 74# 0x000000000067E43C in /usr/bin/python3 100: 75# 0x000000000067E1C8 in /usr/bin/python3 100: 76# Py_RunMain in /usr/bin/python3 100: 77# Py_BytesMain in /usr/bin/python3 100: 78# 0x0000FFFF8F43255C in /usr/lib/aarch64-linux-gnu/libc.so.6 100: 79# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 100: 80# _start in /usr/bin/python3 100: ---------- 100: **** 100: 100: [05:15:59] 100: 100: **** 100: Pre-condition Violation 100: getNumImplicitHs() called without preceding call to calcImplicitValence() 100: Violation occurred on line 301 in file ./Code/GraphMol/Atom.cpp 100: Failed Expression: d_implicitValence > -1 100: ---------- 100: Stacktrace: 100: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 100: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 100: 2# RDKit::Atom::getNumImplicitHs() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 3# RDKit::Atom::getTotalNumHs(bool) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 4# Queries::EqualityQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSmilesParse.so.1 100: 5# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 6# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 7# Queries::OrQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 100: 8# RDKit::atomCompat(RDKit::Atom const*, RDKit::Atom const*, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 9# boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::IsFeasiblePair(unsigned int, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 10# bool boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::MatchAll, std::allocator > >, std::allocator, std::allocator > > > > >(unsigned int*, unsigned int*, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 11# bool boost::vf2_all, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor, std::vector, std::allocator > >, std::allocator, std::allocator > > > > >(boost::adjacency_list const&, boost::adjacency_list const&, RDKit::detail::AtomLabelFunctor&, RDKit::detail::BondLabelFunctor&, RDKit::MolMatchFinalCheckFunctor&, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 12# RDKit::detail::RecursiveMatcher(RDKit::ROMol const&, RDKit::ROMol const&, std::vector >&, std::map*, std::less, std::allocator*> > >&, RDKit::SubstructMatchParameters const&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 13# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 14# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 15# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 16# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 17# RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 100: 18# RDKit::ReactionRunnerUtils::getReactantMatchesToTemplate(RDKit::ROMol const&, RDKit::ROMol const&, unsigned int, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemReactions.so.1 100: 19# RDKit::ReactionRunnerUtils::getReactantMatches(std::vector, std::allocator > > const&, RDKit::ChemicalReaction const&, std::vector, std::allocator > >, std::allocator, std::allocator > > > >, std::allocator, std::allocator > >, std::allocator, std::allocator > > > > > >&, unsigned int, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemReactions.so.1 100: 20# RDKit::run_Reactants(RDKit::ChemicalReaction const&, std::vector, std::allocator > > const&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemReactions.so.1 100: 21# RDKit::ChemicalReaction::runReactants(std::vector, std::allocator > >, unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemReactions.so.1 100: 22# _object* RDKit::RunReactants(RDKit::ChemicalReaction*, boost::python::tuple, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 100: 23# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 100: 24# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 25# 0x0000FFFF8E9A1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 26# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 27# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 100: 28# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 100: 29# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 100: 30# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 100: 31# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 100: 32# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 100: 33# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 100: 34# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 100: 35# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 36# 0x0000FFFF8CEB4200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 37# 0x0000FFFF8CEB419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 38# 0x0000FFFF8CEB4138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 39# 0x0000FFFF8CEB40C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 40# 0x0000FFFF8CEB4064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 100: 41# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 100: 42# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 100: 43# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 100: 44# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 100: 45# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 46# 0x0000FFFF8E99E23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 100: 47# _PyObject_MakeTpCall in /usr/bin/python3 100: 48# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 49# 0x000000000054AD18 in /usr/bin/python3 100: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 51# 0x000000000063D08C in /usr/bin/python3 100: 52# 0x00000000005BE294 in /usr/bin/python3 100: 53# _PyObject_MakeTpCall in /usr/bin/python3 100: 54# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 55# 0x000000000054AD18 in /usr/bin/python3 100: 56# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 57# 0x000000000063D08C in /usr/bin/python3 100: 58# 0x00000000005BE294 in /usr/bin/python3 100: 59# _PyObject_MakeTpCall in /usr/bin/python3 100: 60# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 61# 0x000000000054AD18 in /usr/bin/python3 100: 62# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 63# 0x000000000063D08C in /usr/bin/python3 100: 64# 0x00000000005BE294 in /usr/bin/python3 100: 65# _PyObject_MakeTpCall in /usr/bin/python3 100: 66# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 67# 0x0000000000516CD4 in /usr/bin/python3 100: 68# _PyObject_MakeTpCall in /usr/bin/python3 100: 69# _PyEval_EvalFrameDefault in /usr/bin/python3 100: 70# PyEval_EvalCode in /usr/bin/python3 100: 71# 0x000000000065EE80 in /usr/bin/python3 100: 72# 0x000000000065A730 in /usr/bin/python3 100: 73# 0x000000000067EBA0 in /usr/bin/python3 100: 74# 0x000000000067E43C in /usr/bin/python3 100: 75# 0x000000000067E1C8 in /usr/bin/python3 100: 76# Py_RunMain in /usr/bin/python3 100: 77# Py_BytesMain in /usr/bin/python3 100: 78# 0x0000FFFF8F43255C in /usr/lib/aarch64-linux-gnu/libc.so.6 100: 79# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 100: 80# _start in /usr/bin/python3 100: ---------- 100: **** 100: 100: .........[05:15:59] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 100: [05:15:59] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 100: [05:15:59] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 100: [05:15:59] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 100: .[05:15:59] product atom-mapping number 1 found multiple times. 100: [05:15:59] product atom-mapping number 1 found multiple times. 29: Checking against /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 100: ................[05:15:59] mapped atoms in the reactants were not mapped in the products. 100: unmapped numbers are: 3 100: [05:15:59] mapped atoms in the reactants were not mapped in the products. 100: unmapped numbers are: 3 100: .:488: RuntimeWarning: to-Python converter for boost::shared_ptr already registered; second conversion method ignored. 100: [05:15:59] mapped atoms in the reactants were not mapped in the products. 100: unmapped numbers are: 3 100: ..[05:15:59] reactant 2 has no mapped atoms. 100: [05:15:59] reactant 2 has no mapped atoms. 100: [05:15:59] product 1 has no mapped atoms. 100: ........[05:15:59] SMARTS Parse Error: syntax error while parsing: [C:1](=[O:2])Q 100: [05:15:59] SMARTS Parse Error: check for mistakes around position 14: 100: [05:15:59] [C:1](=[O:2])Q 100: [05:15:59] ~~~~~~~~~~~~~^ 100: [05:15:59] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=[O:2])Q' for input: '[C:1](=[O:2])Q' 100: [05:15:59] SMARTS Parse Error: syntax error while parsing: [C:1](=[O:2])[N:3]Q 100: [05:15:59] SMARTS Parse Error: check for mistakes around position 19: 100: [05:15:59] [C:1](=[O:2])[N:3]Q 100: [05:15:59] ~~~~~~~~~~~~~~~~~~^ 100: [05:15:59] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=[O:2])[N:3]Q' for input: '[C:1](=[O:2])[N:3]Q' 100: .[05:15:59] reactant atom-mapping number 1 found multiple times. 100: [05:15:59] product atom-mapping number 2 not found in reactants. 100: [05:15:59] mapped atoms in the reactants were not mapped in the products. 100: unmapped numbers are: 4 100: [05:15:59] product atom-mapping number 5 not found in reactants. 100: ........./build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/testReactionWrapper.py:745: ResourceWarning: unclosed file <_io.BufferedReader name='/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/testData/reaction1.no_metadata.png'> 100: png = open(fname, 'rb').read() 100: ResourceWarning: Enable tracemalloc to get the object allocation traceback 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 34 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 36 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 38 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 40 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 42 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 87 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 89 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 91 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 93 100: [05:15:59] Found a SCD/SED line with missing/empty SDT specification at line 95 100: ..[05:15:59] SMARTS Parse Error: syntax error while parsing: boromicacid 100: [05:15:59] SMARTS Parse Error: check for mistakes around position 3: 100: [05:15:59] boromicacid 100: [05:15:59] ~~^ 100: [05:15:59] SMARTS Parse Error: Failed parsing SMARTS 'boromicacid' for input: 'boromicacid' 100: [05:15:59] SMARTS Parse Error: syntax error while parsing: carboxylicacid,acidchlroide 100: [05:15:59] SMARTS Parse Error: check for mistakes around position 3: 100: [05:15:59] carboxylicacid,acidchlroide 100: [05:15:59] ~~^ 100: [05:15:59] SMARTS Parse Error: Failed parsing SMARTS 'carboxylicacid,acidchlroide' for input: 'carboxylicacid,acidchlroide' 100: [05:15:59] SMARTS Parse Error: syntax error while parsing: carboxyliccaid,acidchloride 100: [05:15:59] SMARTS Parse Error: check for mistakes around position 3: 100: [05:15:59] carboxyliccaid,acidchloride 100: [05:15:59] ~~^ 100: [05:15:59] SMARTS Parse Error: Failed parsing SMARTS 'carboxyliccaid,acidchloride' for input: 'carboxyliccaid,acidchloride' 100: [05:15:59] reaction has no reactants 100: [05:15:59] reaction has no products 100: [05:15:59] initialization failed 100: [05:15:59] reaction has no reactants 100: [05:15:59] reaction has no products 29: All 191 tests passed 29: done 29: ------------------------------------- 29: Unit tests for all MMFF constraint terms. 100: .[05:15:59] SMARTS Parse Error: syntax error while parsing: boromicacid 100: [05:15:59] SMARTS Parse Error: check for mistakes around position 3: 100: [05:15:59] boromicacid 100: [05:15:59] ~~^ 100: [05:15:59] SMARTS Parse Error: Failed parsing SMARTS 'boromicacid' for input: 'boromicacid' 100: [05:15:59] SMARTS Parse Error: syntax error while parsing: carboxylicacid,acidchlroide 100: [05:15:59] SMARTS Parse Error: check for mistakes around position 3: 100: [05:15:59] carboxylicacid,acidchlroide 100: [05:15:59] ~~^ 100: [05:15:59] SMARTS Parse Error: Failed parsing SMARTS 'carboxylicacid,acidchlroide' for input: 'carboxylicacid,acidchlroide' 100: [05:15:59] SMARTS Parse Error: syntax error while parsing: carboxyliccaid,acidchloride 100: [05:15:59] SMARTS Parse Error: check for mistakes around position 3: 100: [05:15:59] carboxyliccaid,acidchloride 100: [05:15:59] ~~^ 100: [05:15:59] SMARTS Parse Error: Failed parsing SMARTS 'carboxyliccaid,acidchloride' for input: 'carboxyliccaid,acidchloride' 100: [05:15:59] reaction has no reactants 100: [05:15:59] reaction has no products 100: [05:15:59] initialization failed 100: [05:15:59] reaction has no reactants 100: [05:15:59] reaction has no products 100: . 100: ---------------------------------------------------------------------- 100: Ran 54 tests in 0.244s 100: 100: OK 100: ******************************************** 100: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/testData/AmideBond.rxn 100: 29: 10.0003 29: done 29: ------------------------------------- 29: Unit test for MMFF TorsionConstraint close to 0 degrees. 29: done 29: ------------------------------------- 29: Unit tests for copying MMFF ForceFields. 29: done 29: ------------------------------------- 29: Unit test for MMFF butane scan. 93/246 Test #100: pyChemReactions ........................ Passed 0.90 sec test 101 Start 101: pyChemReactionEnumerations 101: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/testEnumerations.py" 101: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 101: Test timeout computed to be: 7200 29: done 94/246 Test #29: testMMFFForceField ..................... Passed 14.59 sec test 102 Start 102: pyChemReactionSanitize 102: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/testSanitize.py" 102: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 102: Test timeout computed to be: 7200 101: [05:16:00] == testCartesianProduct 101: .[05:16:00] == testEnumerateLibrary 101: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/testEnumerations.py:266: ResourceWarning: unclosed file <_io.BufferedReader name='/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/testData/enumeration.pickle'> 101: open(os.path.join(self.dataDir, "enumeration.pickle"), 'rb').read()) 101: ResourceWarning: Enable tracemalloc to get the object allocation traceback 101: ..[05:16:00] == testRGroupState 101: .[05:16:00] == testRandomEnumerateAllBBsLibrary 101: ** [1, 1] 101: ** [0, 2] 101: ** [1, 0] 101: .[05:16:00] == testRandomEnumerateLibrary 101: .[05:16:00] == testRandomSample 101: .[05:16:00] == testRandomSampleAllBBs 101: .[05:16:00] deprecated -- please use MatchOnlyAtRgroupsAdjustParams instead 101: [05:16:00] deprecated -- please use MatchOnlyAtRgroupsAdjustParams instead 101: .[05:16:00] == testRemoveBadMatches 101: .[05:16:00] == testTimings 102: .[05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: .[05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: () 102: ******************************************** 102: $RXN 102: 102: RDKit 102: 102: 2 1 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 1 0 0 0 0 0 0999 V2000 102: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 102: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 1 2 1 0 102: M RGP 1 2 1 102: V 1 halogen.bromine.aromatic 102: V 2 [*:1] 102: M STY 1 1 DAT 102: M SAL 1 1 1 102: M SED 1 [#35&$([Br&$(Br-&!@c)])] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 4 3 0 1 0 0 0 0 0 0999 V2000 102: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 102: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 2 3 1 0 102: 1 2 1 0 102: 2 4 1 0 102: M RGP 1 1 2 102: V 1 [*:2] 102: V 2 boronicacid 102: M STY 1 1 DAT 102: M SAL 1 1 2 102: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 0 0 0 0 0 0 0999 V2000 102: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 102: 1 2 1 0 102: M RGP 2 1 1 2 2 102: V 1 [*:1] 102: V 2 [*:2] 102: M END 102: 102: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 102: $RXN 102: 102: RDKit 102: 102: 2 1 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 1 0 0 0 0 0 0999 V2000 102: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 102: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 1 2 1 0 102: M RGP 1 2 1 102: V 1 halogen.bromine.aromatic 102: V 2 [*:1] 102: M STY 1 1 DAT 102: M SAL 1 1 1 102: M SED 1 [#35&$([Br&$(Br-&!@c)])] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 4 3 0 1 0 0 0 0 0 0999 V2000 102: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 102: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 2 3 1 0 102: 1 2 1 0 102: 2 4 1 0 102: M RGP 1 1 2 102: V 1 [*:2] 102: V 2 boronicacid 102: M STY 1 1 DAT 102: M SAL 1 1 2 102: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 0 0 0 0 0 0 0999 V2000 102: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 102: 1 2 1 0 102: M RGP 2 1 1 2 2 102: V 1 [*:1] 102: V 2 [*:2] 102: M END 102: 102: ******************************************** 102: $RXN 102: 102: RDKit 102: 102: 2 1 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 1 0 0 0 0 0 0999 V2000 102: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 102: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 102: 1 2 1 0 102: M RGP 1 2 1 102: V 1 halogen.bromine.aromatic 102: V 2 * 102: M STY 1 1 DAT 102: M SAL 1 1 1 102: M SED 1 [#35&$([Br&$(Br-&!@c)])] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 4 3 0 1 0 0 0 0 0 0999 V2000 102: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 2 3 1 0 102: 1 2 1 0 102: 2 4 1 0 102: M RGP 1 1 2 102: V 1 * 102: V 2 boronicacid 102: M STY 1 1 DAT 102: M SAL 1 1 2 102: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 0 0 0 0 0 0 0999 V2000 102: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 102: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 102: 1 2 1 0 102: M RGP 2 1 1 2 2 102: V 1 * 102: V 2 * 102: M END 102: 102: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 102: $RXN 102: 102: RDKit 102: 102: 2 1 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 1 0 0 0 0 0 0999 V2000 102: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 102: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 1 2 1 0 102: M RGP 1 2 1 102: V 1 halogen.bromine.aromatic 102: V 2 [*:1] 102: M STY 1 1 DAT 102: M SAL 1 1 1 102: M SED 1 [#35&$([Br&$(Br-&!@c)])] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 4 3 0 1 0 0 0 0 0 0999 V2000 102: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 102: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 2 3 1 0 102: 1 2 1 0 102: 2 4 1 0 102: M RGP 1 1 2 102: V 1 [*:2] 102: V 2 boronicacid 102: M STY 1 1 DAT 102: M SAL 1 1 2 102: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 0 0 0 0 0 0 0999 V2000 102: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 102: 1 2 1 0 102: M RGP 2 1 1 2 2 102: V 1 [*:1] 102: V 2 [*:2] 102: M END 102: 102: ******************************************** 102: $RXN 102: 102: RDKit 102: 102: 2 1 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 1 0 0 0 0 0 0999 V2000 102: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 102: -3.9875 -7.4667 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 102: 1 2 1 0 102: M ISO 1 2 1 102: V 1 halogen.bromine.aromatic 102: M STY 1 1 DAT 102: M SAL 1 1 1 102: M SED 1 [#35&$([Br&$(Br-&!@c)])] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 4 3 0 1 0 0 0 0 0 0999 V2000 102: 3.4375 -7.7917 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 2 3 1 0 102: 1 2 1 0 102: 2 4 1 0 102: M ISO 1 1 2 102: V 2 boronicacid 102: M STY 1 1 DAT 102: M SAL 1 1 2 102: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 0 0 0 0 0 0 0999 V2000 102: 11.2667 -7.3417 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 102: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 102: 1 2 1 0 102: M ISO 2 1 1 2 2 102: M END 102: 102: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 102: $RXN 102: 102: RDKit 102: 102: 2 1 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 1 0 0 0 0 0 0999 V2000 102: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 102: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 1 2 1 0 102: M RGP 1 2 1 102: V 1 halogen.bromine.aromatic 102: V 2 [*:1] 102: M STY 1 1 DAT 102: M SAL 1 1 1 102: M SED 1 [#35&$([Br&$(Br-&!@c)])] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 4 3 0 1 0 0 0 0 0 0999 V2000 102: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 102: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 2 3 1 0 102: 1 2 1 0 102: 2 4 1 0 102: M RGP 1 1 2 102: V 1 [*:2] 102: V 2 boronicacid 102: M STY 1 1 DAT 102: M SAL 1 1 2 102: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 0 0 0 0 0 0 0999 V2000 102: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 102: 1 2 1 0 102: M RGP 2 1 1 2 2 102: V 1 [*:1] 102: V 2 [*:2] 102: M END 102: 102: ******************************************** 102: $RXN 102: 102: RDKit 102: 102: 2 1 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 1 0 0 0 0 0 0999 V2000 102: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 102: -3.9875 -7.4667 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 102: 1 2 1 0 102: M ISO 1 2 1 102: V 1 halogen.bromine.aromatic 102: M STY 1 1 DAT 102: M SAL 1 1 1 102: M SED 1 [#35&$([Br&$(Br-&!@c)])] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 4 3 0 1 0 0 0 0 0 0999 V2000 102: 3.4375 -7.7917 0.0000 R3 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 2 3 1 0 102: 1 2 1 0 102: 2 4 1 0 102: M ISO 1 1 3 102: V 2 boronicacid 102: M STY 1 1 DAT 102: M SAL 1 1 2 102: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 0 0 0 0 0 0 0999 V2000 102: 11.2667 -7.3417 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 102: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 102: 1 2 1 0 102: M ISO 2 1 1 2 2 102: M END 102: [05:16:00] reactant 0 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] product 0 has no mapped atoms. 102: [05:16:00] Could not find RLabel mapping for atom: 0 in template: 1 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: [05:16:00] reactant 1 has no mapped atoms. 102: .. 102: ---------------------------------------------------------------------- 102: Ran 4 tests in 0.025s 102: 102: OK 102: 102: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 102: $RXN 102: 102: RDKit 102: 102: 2 1 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 1 0 0 0 0 0 0999 V2000 102: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 102: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 1 2 1 0 102: M RGP 1 2 1 102: V 1 halogen.bromine.aromatic 102: V 2 [*:1] 102: M STY 1 1 DAT 102: M SAL 1 1 1 102: M SED 1 [#35&$([Br&$(Br-&!@c)])] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 4 3 0 1 0 0 0 0 0 0999 V2000 102: 3.4375 -7.7917 0.0000 R3 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 102: 2 3 1 0 102: 1 2 1 0 102: 2 4 1 0 102: M ISO 1 1 3 102: V 2 boronicacid 102: M STY 1 1 DAT 102: M SAL 1 1 2 102: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 102: M END 102: $MOL 102: 102: RDKit 2D 102: 102: 2 1 0 0 0 0 0 0 0 0999 V2000 102: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 102: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 102: 1 2 1 0 102: M ISO 1 2 2 102: M RGP 1 1 1 102: V 1 [*:1] 102: M END 102: 102: $RXN Failed 82: =============================================================================== 82: All tests passed (1645 assertions in 100 test cases) 82: 95/246 Test #82: fileParsersCatchTest ................... Passed 8.53 sec test 103 Start 103: testChemTransforms 103: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/testChemTransforms 103: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms 103: Test timeout computed to be: 7200 96/246 Test #102: pyChemReactionSanitize ................. Passed 0.59 sec test 104 Start 104: chemTransformsTestCatch 104: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms 104: Test timeout computed to be: 7200 103: 1 smi: CC 103: 1 smi: CC 103: 2 smi: CCO[C@H](N)P 103: 2 smi: CC 103: replaceSub smi1:CCP(CC)[C@@H](N)O 103: replaceSub smi1:CCNCC 103: sidechains chiral=true smi1;;; [1*]P([2*])[C@H](N)O 103: sidechains chiral=false smi1;;; [1*]P([2*])[C@H](N)O 103: [05:16:00] SMARTS Parse Error: syntax error while parsing: bar 103: [05:16:00] SMARTS Parse Error: check for mistakes around position 3: 103: [05:16:00] bar 103: [05:16:00] ~~^ 103: [05:16:00] SMARTS Parse Error: Failed parsing SMARTS 'bar' for input: 'bar' 104: Randomness seeded to: 1243389479 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 97/246 Test #103: testChemTransforms ..................... Passed 0.09 sec test 105 Start 105: tautomerQueryTestCatch 105: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/tautomerQueryTestCatch 105: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery 105: Test timeout computed to be: 7200 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 52: Randomness seeded to: 1629855042 52: =============================================================================== 52: All tests passed (14835 assertions in 14 test cases) 52: 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 104: [05:16:00] Incomplete atom labelling, cannot make bond 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: bond info already exists for end atom with label:1 104: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: !bond.b 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# 0x0000AAAAC0324DEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 5# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 12# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 104: [05:16:00] 104: 104: **** 104: Invariant Violation 104: molzip: zipped Bond already exists, perhaps labels are duplicated 104: Violation occurred on line 749 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 104: Failed Expression: params.label == MolzipLabel::FragmentOnBonds || !a->getOwningMol().getBondBetweenAtoms(a->getIdx(), b->getIdx()) 104: ---------- 104: Stacktrace: 104: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 104: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 4# RDKit::molzip(RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 104: 5# 0x0000AAAAC031EB0C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 6# 0x0000AAAAC0377CEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 7# 0x0000AAAAC03786A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 8# 0x0000AAAAC0378AD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 9# 0x0000AAAAC034C0B8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 10# 0x0000AAAAC034C5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 11# 0x0000AAAAC031D42C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: 12# 0x0000FFFFB684255C in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 13# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 104: 14# 0x0000AAAAC031D4F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 104: ---------- 104: **** 104: 98/246 Test #52: canonTestsCatch ........................ Passed 13.45 sec test 106 Start 106: pyTautomerQuery 106: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/TautomerQuery/Wrap/rough_test.py" 106: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap 106: Test timeout computed to be: 7200 104: =============================================================================== 104: All tests passed (502 assertions in 11 test cases) 104: 99/246 Test #104: chemTransformsTestCatch ................ Passed 0.09 sec test 107 Start 107: testSubgraphs1 107: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/testSubgraphs1 107: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs 107: Test timeout computed to be: 7200 107: ----------------------- 107: Subgraph retrieval 107: Finished 107: ----------------------- 107: testSubgraphs2a 107: Finished 107: ----------------------- 107: testSubgraphs2 107: Finished 107: ----------------------- 107: Path retrieval 107: Finished 107: ----------------------- 107: Path retrieval2 107: Finished 107: ----------------------- 107: Unique Subgraph retrieval 107: Finished 107: ----------------------- 107: testUniqueSubgraphs2 105: Randomness seeded to: 457511247 105: =============================================================================== 105: All tests passed (112 assertions in 14 test cases) 105: 100/246 Test #105: tautomerQueryTestCatch ................. Passed 0.22 sec test 108 Start 108: testSubgraphs2 108: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/testSubgraphs2 108: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs 108: Test timeout computed to be: 7200 108: ----------------------- 108: Test1: pathToSubmol 108: Finished 108: ----------------------- 108: Test2: Atom Environments 108: Finished 108: ----------------------- 108: Test 3: Atom Environments (Extension) 108: Finished 108: ----------------------- 108: Testing github Issue103: stereochemistry and pathToSubmol 108: Finished 108: ----------------------- 108: Testing github Issue103: more stereochemistry and pathToSubmol (path needs to be in sorted order) 108: Finished 101/246 Test #108: testSubgraphs2 ......................... Passed 0.03 sec test 109 Start 109: subgraphsCatch 109: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/subgraphsCatch 109: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs 109: Test timeout computed to be: 7200 109: Randomness seeded to: 11634162 109: --------- 109: =============================================================================== 109: All tests passed (11 assertions in 1 test case) 109: 107: Finished 107: ----------------------- 107: testRootedSubgraphs 107: Finished 107: ----------------------- 107: testRootedPaths 107: Finished 102/246 Test #109: subgraphsCatch ......................... Passed 0.05 sec test 110 Start 110: filterCatalogTest 110: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/filterCatalogTest 110: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog 110: Test timeout computed to be: 7200 103/246 Test #107: testSubgraphs1 ......................... Passed 0.28 sec test 111 Start 111: pyFilterCatalog 111: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/Wrap/rough_test.py" 111: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap 111: Test timeout computed to be: 7200 110: Warning: molecule failed filter 110: Warning: molecule failed filter: reason hzone_phenol_A(479) 110: v = { 110: 0,23}, 110: 1,22}, 110: 2,20}, 110: 3,19}, 110: 4,25}, 110: 5,24}, 110: 6,18}, 110: 7,17}, 110: 8,16}, 110: 9,21}, 110: } 110: match = { 110: 0,23}, 110: 1,22}, 110: 2,20}, 110: 3,19}, 110: 4,25}, 110: 5,24}, 110: 6,18}, 110: 7,17}, 110: 8,16}, 110: 9,21}, 110: } 110: Warning: molecule failed filter 110: Warning: molecule failed filter: reason cyano_imine_B(17) 110: v = { 110: 0,11}, 110: 1,12}, 110: 2,13}, 110: 3,14}, 110: 4,15}, 110: 5,10}, 110: 6,9}, 110: 7,8}, 110: 8,7}, 110: 9,6}, 110: 10,5}, 110: 11,17}, 110: 12,16}, 110: } 110: match = { 110: 0,11}, 110: 1,12}, 110: 2,13}, 110: 3,14}, 110: 4,15}, 110: 5,10}, 110: 6,9}, 110: 7,8}, 110: 8,7}, 110: 9,6}, 110: 10,5}, 110: 11,17}, 110: 12,16}, 110: } 110: Warning: molecule failed filter 110: Warning: molecule failed filter: reason keto_keto_gamma(5) 110: v = { 110: 0,0}, 110: 1,1}, 110: 2,2}, 110: 3,4}, 110: 4,5}, 110: 5,6}, 110: 6,7}, 110: 7,8}, 110: 8,9}, 110: 9,14}, 110: 10,15}, 110: 11,16}, 110: } 110: match = { 110: 0,0}, 110: 1,1}, 110: 2,2}, 110: 3,4}, 110: 4,5}, 110: 5,6}, 110: 6,7}, 110: 7,8}, 110: 8,9}, 110: 9,14}, 110: 10,15}, 110: 11,16}, 110: } 106: ..... 106: ---------------------------------------------------------------------- 106: Ran 5 tests in 0.060s 106: 106: OK 101: . 101: ---------------------------------------------------------------------- 101: Ran 11 tests in 0.913s 101: 101: OK 101: True 101: == CartesianProductStrategy CartesianProductStrategy 101: 197 out of 300 101: 0 6 out of 10 101: 1 3 out of 5 101: 2 4 out of 6 101: 198 out of 300 101: 0 10 out of 10 101: 1 5 out of 5 101: 2 6 out of 6 101: Skipped 10000000 in 0.06248879432678223 seconds 101: Skipped 10000000 in 0.4376978874206543 seconds 101: Skipped 10000000 in 0.153975248336792 seconds 104/246 Test #106: pyTautomerQuery ........................ Passed 0.49 sec test 112 Start 112: testFragCatalog 112: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog 112: Test timeout computed to be: 7200 83: Randomness seeded to: 4118284228 83: [05:16:01] 3D constraint information in mol block ignored at line 46 83: [05:16:01] 3D constraint information in mol block ignored at line 46 83: [05:16:01] 3D constraint information in mol block ignored at line 58 83: [05:16:01] 3D constraint information in mol block ignored at line 58 83: [05:16:01] 3D constraint information in mol block ignored at line 46 83: =============================================================================== 83: All tests passed (315 assertions in 3 test cases) 83: 105/246 Test #83: macromolsCatchTest ..................... Passed 9.14 sec test 113 Start 113: pyFragCatalog 113: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/Wrap/rough_test.py" 113: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap 113: Test timeout computed to be: 7200 112: 21 106/246 Test #101: pyChemReactionEnumerations ............. Passed 1.44 sec 107/246 Test #110: filterCatalogTest ...................... Passed 0.27 sec test 114 Start 114: testDescriptors 114: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testDescriptors 114: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 114: Test timeout computed to be: 7200 test 115 Start 115: testAUTOCORR2D 115: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testAUTOCORR2D 115: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 115: Test timeout computed to be: 7200 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test Crippen parameter acquisition. 115: [05:16:01] ---------------------------- 115: start test autocorr2D 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test Crippen calculation. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test Issue262: problems with Crippen calculation from pickles. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test AMW calculation. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test Exact MW calculation. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test Labute ASA descriptors. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test TPSA descriptors. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test Lipinski parameters. 111: :488: RuntimeWarning: to-Python converter for boost::shared_ptr already registered; second conversion method ignored. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test VSA descriptors. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test molecular formula calculation. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test Issue 3415534. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test Issue3433771: Bad definition for Crippen atom type O11. 114: [05:16:01] done 114: [05:16:01] ------------------------------------- 114: [05:16:01] Test multithreading 114: reading molecules 114: processing 114: launch :0 114: launch :1 114: launch :2 114: launch :3 115: [05:16:01] done 115: [05:16:01] ------------------------------------- 115: [05:16:01] Test Github #3806: NaNs from AUTOCORR2D descriptor 115: [05:16:01] done 108/246 Test #115: testAUTOCORR2D ......................... Passed 0.38 sec test 116 Start 116: testATF 116: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testATF 116: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 116: Test timeout computed to be: 7200 113: ......... 113: ---------------------------------------------------------------------- 113: Ran 9 tests in 0.067s 113: 113: OK 109/246 Test #116: testATF ................................ Passed 0.03 sec test 117 Start 117: testBCUT 117: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testBCUT 117: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 117: Test timeout computed to be: 7200 117: [05:16:01] ------------------------------------- 117: [05:16:01] Basic BCUT tests. 117: [05:16:01] done 117: [05:16:01] ------------------------------------- 117: [05:16:01] Larger BCUT tests. 110/246 Test #113: pyFragCatalog .......................... Passed 0.51 sec test 118 Start 118: testEEM 118: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testEEM 118: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 118: Test timeout computed to be: 7200 118: =>start test EEM 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: 0 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 112: [05:16:01] 112: 112: **** 112: Invariant Violation 112: nonsense 112: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 112: Failed Expression: token != tokens.end() 112: ---------- 112: Stacktrace: 112: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 112: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 112: 2# 0x0000FFFFAF6F3868 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 112: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 112: 4# 0x0000AAAACD999484 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: 5# 0x0000AAAACD994B60 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: 6# 0x0000FFFFAEC3255C in /usr/lib/aarch64-linux-gnu/libc.so.6 112: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 112: 8# 0x0000AAAACD994D30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: ---------- 112: **** 112: 112: [05:16:01] 112: 112: **** 112: Invariant Violation 112: nonsense no new line 112: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 112: Failed Expression: token != tokens.end() 112: ---------- 112: Stacktrace: 112: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 112: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 112: 2# 0x0000FFFFAF6F3868 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 112: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 112: 4# 0x0000AAAACD999484 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: 5# 0x0000AAAACD994B60 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: 6# 0x0000FFFFAEC3255C in /usr/lib/aarch64-linux-gnu/libc.so.6 112: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 112: 8# 0x0000AAAACD994D30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: ---------- 112: **** 112: 112: [05:16:01] 112: 112: **** 112: Invariant Violation 112: nonsense with tab 112: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 112: Failed Expression: token != tokens.end() 112: ---------- 112: Stacktrace: 112: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 112: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 112: 2# 0x0000FFFFAF6F3868 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 112: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 112: 4# 0x0000AAAACD999484 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: 5# 0x0000AAAACD994B60 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: 6# 0x0000FFFFAEC3255C in /usr/lib/aarch64-linux-gnu/libc.so.6 112: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 112: 8# 0x0000AAAACD994D30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 112: ---------- 112: **** 112: 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 111/246 Test #112: testFragCatalog ........................ Passed 0.66 sec test 119 Start 119: testPBF 119: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testPBF 119: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 119: Test timeout computed to be: 7200 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: 100 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [05:16:01] ------------------------------------- 119: [05:16:01] Basic PBF tests. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: 200 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [05:16:01] done 119: [05:16:01] ------------------------------------- 119: [05:16:01] PBF edge cases. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [05:16:01] done 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 112/246 Test #119: testPBF ................................ Passed 0.20 sec test 120 Start 120: testRDFcustom 120: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testRDFcustom 120: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 120: Test timeout computed to be: 7200 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:01] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: 300 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 111: .............[05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 111: [05:16:02] SMILES Parse Error: syntax error while parsing: --- 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] --- 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 111: [05:16:02] dasfsadf 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [05:16:02] ------------------------------------- 117: [05:16:02] Test empty molecule BCUT. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 113/246 Test #117: testBCUT ............................... Passed 0.60 sec test 121 Start 121: testRDF 121: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testRDF 121: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 121: Test timeout computed to be: 7200 111: .[05:16:02] SMILES Parse Error: syntax error while parsing: mydoghasfleas 111: [05:16:02] SMILES Parse Error: check for mistakes around position 1: 111: [05:16:02] mydoghasfleas 111: [05:16:02] ^ 111: [05:16:02] SMILES Parse Error: Failed parsing SMILES 'mydoghasfleas' for input: 'mydoghasfleas' 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: 400 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 111: ....... 111: ---------------------------------------------------------------------- 111: Ran 21 tests in 0.968s 111: 111: OK 111: (Five aromatic carbons And (Not any of Five aromatic carbons)) 111: (Five aromatic carbons Or (Not any of Five aromatic carbons)) 111: (Not (Five aromatic carbons And (Not any of Five aromatic carbons))) 111: ******************************************** 111: Testing: PAINS_A 2 111: ******************************************** 111: Testing: PAINS_B 4 111: ******************************************** 111: Testing: PAINS_C 8 111: ******************************************** 111: Testing: PAINS 14 111: (Not FilterMatcher) 111: Bar 111: Count 1 111: ******************************************** 111: {'Cl,Br,I'} 111: 1 111: 2 111: running 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [05:16:02] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: Elapsed time: 0.654468 s 118: Errors:0 118: [05:16:02] test on : 500 molecules done 114/246 Test #118: testEEM ................................ Passed 0.68 sec test 122 Start 122: testMORSE 122: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testMORSE 122: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 122: Test timeout computed to be: 7200 115/246 Test #111: pyFilterCatalog ........................ Passed 1.48 sec test 123 Start 123: test3D 123: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/test3D 123: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 123: Test timeout computed to be: 7200 123: [05:16:02] ------------------------------------- 123: [05:16:02] Basic PMI tests. 120: =>start test rdf custom 120: [05:16:02] test on : 365 molecules done 123: [05:16:02] done 123: [05:16:02] ------------------------------------- 123: [05:16:02] More PMI/NPR tests. 123: [05:16:02] done 123: [05:16:02] ------------------------------------- 123: [05:16:02] Basic NPR tests. 123: [05:16:02] done 123: [05:16:02] ------------------------------------- 123: [05:16:02] PMI edge cases. 123: [05:16:02] done 123: [05:16:02] ------------------------------------- 123: [05:16:02] NPR edge cases. 123: [05:16:02] done 123: [05:16:02] ------------------------------------- 123: [05:16:02] 3D descriptors. 123: [05:16:02] done 123: [05:16:02] ------------------------------------- 123: [05:16:02] 3D descriptor edge cases. 123: [05:16:02] done 123: [05:16:02] ------------------------------------- 123: [05:16:02] Inertial shape factor. 123: [05:16:02] done 116/246 Test #123: test3D ................................. Passed 0.49 sec test 124 Start 124: testWHIM 124: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testWHIM 124: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 124: Test timeout computed to be: 7200 121: =>start test rdf 121: [05:16:02] test on : 365 molecules done 117/246 Test #121: testRDF ................................ Passed 0.81 sec test 125 Start 125: testGETAWAY 125: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testGETAWAY 125: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 125: Test timeout computed to be: 7200 122: =>start test MORSE 122: =>read file 122: [05:16:03] test on : 365 molecules done 118/246 Test #122: testMORSE .............................. Passed 0.84 sec test 126 Start 126: testAUTOCORR3D 126: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testAUTOCORR3D 126: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 126: Test timeout computed to be: 7200 124: =>start test WHIM 124: [05:16:03] test on : 365 molecules done 119/246 Test #124: testWHIM ............................... Passed 0.35 sec test 127 Start 127: testCoulombMat 127: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testCoulombMat 127: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 127: Test timeout computed to be: 7200 127: ===================== Testing CoulombMat ======================= 127: CM test 1 mat Done 120/246 Test #127: testCoulombMat ......................... Passed 0.03 sec test 128 Start 128: descriptorsTestCatch 128: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/descriptorsTestCatch 128: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 128: Test timeout computed to be: 7200 128: Randomness seeded to: 1960564134 128: Warning: Atom Count for residue GLU5A does not match expected count 128: Warning: Atom Count for residue ASN39A does not match expected count 128: Warning: Atom Count for residue GLU53A does not match expected count 128: Warning: Atom Count for residue ARG64A does not match expected count 128: Warning: Atom Count for residue LYS80A does not match expected count 128: Warning: Atom Count for residue GLU150A does not match expected count 128: Warning: Atom Count for residue ASN157A does not match expected count 120: =>start test morse custom 120: [05:16:03] test on : 365 molecules done 128: Warning: Atom Count for residue GLU5A does not match expected count 126: =>start test autocorr3D 126: [05:16:03] test on : 365 molecules done 121/246 Test #126: testAUTOCORR3D ......................... Passed 0.39 sec test 129 Start 129: pyMolDescriptors 129: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Wrap/testMolDescriptors.py" 129: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap 129: Test timeout computed to be: 7200 128: Warning: Atom Count for residue ASN39A does not match expected count 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test Issue252: Bad definitions for Crippen atom types. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test calculation of ChiVs. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test calculation of ChiNs. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test calculation of HallKierAlpha. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test calculation of Kappa1. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test calculation of Kappa2. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test calculation of Kappa3. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test Crippen atom type calculations. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test ring descriptors 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test other count descriptors. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test MQN 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test GitHub Issue 56. 114: [05:16:03] WARNING: not removing hydrogen atom without neighbors 114: [05:16:03] WARNING: not removing hydrogen atom without neighbors 114: [05:16:03] WARNING: not removing hydrogen atom without neighbors 114: [05:16:03] WARNING: not removing hydrogen atom without neighbors 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test Github92: Bad Crippen atom type for pyrrole H. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test Github362: order dependence in Kier-Hall descriptors. 128: Warning: Atom Count for residue GLU53A does not match expected count 120: =>start test AUTOCORR3D custom 120: [05:16:03] test on : 365 molecules done 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test calculation of spiro and bridgehead counts. 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test Github694: ExactMolWt ignoring the mass of the electron 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Testing Properties and KitchenSink 114: [05:16:03] ---Caught keyerror (bad property name)--- 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test USR Descriptor 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test Github #1702: AUTOCORR2D.h not installed unless RDK_BUILD_DESCRIPTORS3D but is required 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test Github #1973: support P and S terms for TPSA calculation 114: [05:16:03] done 114: [05:16:03] ------------------------------------- 114: [05:16:03] Test Github #2948: Empty molecule has non-zero LabuteASA 114: [05:16:03] done 122/246 Test #114: testDescriptors ........................ Passed 2.78 sec test 130 Start 130: pyMolDescriptors3D 130: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Wrap/test3D.py" 130: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap 130: Test timeout computed to be: 7200 128: Warning: Atom Count for residue ARG64A does not match expected count 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: ..[05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: .[05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 129: ..[05:16:04] 129: 129: **** 129: Pre-condition Violation 129: Number of atom props not equal to number of atoms 129: Violation occurred on line 89 in file ./Code/GraphMol/Descriptors/BCUT.cpp 129: Failed Expression: atom_props.size() == num_atoms 129: ---------- 129: Stacktrace: 129: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 129: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 129: 2# RDKit::Descriptors::BCUT2D(RDKit::ROMol const&, std::vector > const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitDescriptors.so.1 129: 3# 0x0000FFFF7C2B8A30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolDescriptors.so 129: 4# 0x0000FFFF7C2DFED4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolDescriptors.so 129: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 129: 6# 0x0000FFFF80371620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 129: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 129: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 129: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 129: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 129: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 129: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 129: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 129: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 129: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 129: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 129: 17# 0x0000FFFF7E854200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 129: 18# 0x0000FFFF7E85419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 129: 19# 0x0000FFFF7E854138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 129: 20# 0x0000FFFF7E8540C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 129: 21# 0x0000FFFF7E854064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 129: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 129: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 129: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 129: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 129: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 129: 27# 0x0000FFFF8036E23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 129: 28# _PyObject_MakeTpCall in /usr/bin/python3 129: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 129: 30# 0x000000000054AD18 in /usr/bin/python3 129: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 129: 32# 0x000000000063D08C in /usr/bin/python3 129: 33# 0x00000000005BE294 in /usr/bin/python3 129: 34# _PyObject_MakeTpCall in /usr/bin/python3 129: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 129: 36# 0x000000000054AD18 in /usr/bin/python3 129: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 129: 38# 0x000000000063D08C in /usr/bin/python3 129: 39# 0x00000000005BE294 in /usr/bin/python3 129: 40# _PyObject_MakeTpCall in /usr/bin/python3 129: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 129: 42# 0x000000000054AD18 in /usr/bin/python3 129: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 129: 44# 0x000000000063D08C in /usr/bin/python3 129: 45# 0x00000000005BE294 in /usr/bin/python3 129: 46# _PyObject_MakeTpCall in /usr/bin/python3 129: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 129: 48# 0x0000000000516BB0 in /usr/bin/python3 129: 49# _PyObject_MakeTpCall in /usr/bin/python3 129: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 129: 51# PyEval_EvalCode in /usr/bin/python3 129: 52# 0x000000000065EE80 in /usr/bin/python3 129: 53# 0x000000000065A730 in /usr/bin/python3 129: 54# 0x000000000067EBA0 in /usr/bin/python3 129: 55# 0x000000000067E43C in /usr/bin/python3 129: 56# 0x000000000067E1C8 in /usr/bin/python3 129: 57# Py_RunMain in /usr/bin/python3 129: 58# Py_BytesMain in /usr/bin/python3 129: 59# 0x0000FFFF80CD255C in /usr/lib/aarch64-linux-gnu/libc.so.6 129: 60# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 129: 61# _start in /usr/bin/python3 129: ---------- 129: **** 129: 129: ...Warning: Atom Count for residue GLU5A does not match expected count 129: Warning: Atom Count for residue ASN39A does not match expected count 129: Warning: Atom Count for residue GLU53A does not match expected count 129: Warning: Atom Count for residue ARG64A does not match expected count 129: Warning: Atom Count for residue LYS80A does not match expected count 129: Warning: Atom Count for residue GLU150A does not match expected count 129: Warning: Atom Count for residue ASN157A does not match expected count 120: =>start test 2 WHIM custom 120: [05:16:04] test on : 365 molecules done 129: Warning: Atom Count for residue GLU5A does not match expected count 128: Warning: Atom Count for residue LYS80A does not match expected count 120: =>start test 1 WHIM custom 120: [05:16:04] test on : 365 molecules done 130: ........ 130: ---------------------------------------------------------------------- 130: Ran 8 tests in 0.196s 130: 130: OK 129: Warning: Atom Count for residue ASN39A does not match expected count 123/246 Test #130: pyMolDescriptors3D ..................... Passed 0.71 sec test 131 Start 131: testFingerprints 131: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/testFingerprints 131: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 131: Test timeout computed to be: 7200 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: Atoms: 131: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: 1 conj?: 1 131: 1 1->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: a conj?: 1 aromatic?: 1 131: 6 6->7 order: a conj?: 1 aromatic?: 1 131: 7 7->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: 1 conj?: 1 131: 9 8->10 order: a conj?: 1 aromatic?: 1 131: 10 10->1 order: a conj?: 1 aromatic?: 1 131: 11 7->3 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: SMI: Oc1cc2[nH]cnc2c(O)n1 131: Atoms: 131: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: 1 conj?: 1 131: 1 1->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: a conj?: 1 aromatic?: 1 131: 6 6->7 order: a conj?: 1 aromatic?: 1 131: 7 7->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: 1 conj?: 1 131: 9 8->10 order: a conj?: 1 aromatic?: 1 131: 10 10->1 order: a conj?: 1 aromatic?: 1 131: 11 7->3 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: c1(O)cc2[nH]cnc2c(O)n1 131: Atoms: 131: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 1 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: 1 conj?: 1 131: 1 0->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: a conj?: 1 aromatic?: 1 131: 6 6->7 order: a conj?: 1 aromatic?: 1 131: 7 7->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: 1 conj?: 1 131: 9 8->10 order: a conj?: 1 aromatic?: 1 131: 10 10->0 order: a conj?: 1 aromatic?: 1 131: 11 7->3 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: c1c(O)nc(O)c2c1[nH]cn2 131: Atoms: 131: 0 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 2 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 3 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 5 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: a conj?: 1 aromatic?: 1 131: 1 1->2 order: 1 conj?: 1 131: 2 1->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: 1 conj?: 1 131: 5 4->6 order: a conj?: 1 aromatic?: 1 131: 6 6->7 order: a conj?: 1 aromatic?: 1 131: 7 7->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: a conj?: 1 aromatic?: 1 131: 9 9->10 order: a conj?: 1 aromatic?: 1 131: 10 7->0 order: a conj?: 1 aromatic?: 1 131: 11 10->6 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: c12cc(O)nc(O)c1nc[nH]2 131: Atoms: 131: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 3 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: a conj?: 1 aromatic?: 1 131: 1 1->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: 1 conj?: 1 131: 3 2->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: 1 conj?: 1 131: 6 5->7 order: a conj?: 1 aromatic?: 1 131: 7 7->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: a conj?: 1 aromatic?: 1 131: 9 9->10 order: a conj?: 1 aromatic?: 1 131: 10 7->0 order: a conj?: 1 aromatic?: 1 131: 11 10->0 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: [nH]1c2cc(O)nc(O)c2nc1 131: Atoms: 131: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 4 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 7 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 9 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 10 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: a conj?: 1 aromatic?: 1 131: 1 1->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: 1 conj?: 1 131: 4 3->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: a conj?: 1 aromatic?: 1 131: 6 6->7 order: 1 conj?: 1 131: 7 6->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: a conj?: 1 aromatic?: 1 131: 9 9->10 order: a conj?: 1 aromatic?: 1 131: 10 10->0 order: a conj?: 1 aromatic?: 1 131: 11 8->1 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: c1[nH]c2cc(O)nc(O)c2n1 131: Atoms: 131: 0 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 1 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 5 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 8 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 9 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: a conj?: 1 aromatic?: 1 131: 1 1->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: 1 conj?: 1 131: 5 4->6 order: a conj?: 1 aromatic?: 1 131: 6 6->7 order: a conj?: 1 aromatic?: 1 131: 7 7->8 order: 1 conj?: 1 131: 8 7->9 order: a conj?: 1 aromatic?: 1 131: 9 9->10 order: a conj?: 1 aromatic?: 1 131: 10 10->0 order: a conj?: 1 aromatic?: 1 131: 11 9->2 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: n1c[nH]c2cc(O)nc(O)c21 131: Atoms: 131: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 2 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 10 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: a conj?: 1 aromatic?: 1 131: 1 1->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: 1 conj?: 1 131: 6 5->7 order: a conj?: 1 aromatic?: 1 131: 7 7->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: 1 conj?: 1 131: 9 8->10 order: a conj?: 1 aromatic?: 1 131: 10 10->0 order: a conj?: 1 aromatic?: 1 131: 11 10->3 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: c12c(cc(O)nc1O)[nH]cn2 131: Atoms: 131: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 4 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 7 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: a conj?: 1 aromatic?: 1 131: 1 1->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: 1 conj?: 1 131: 4 3->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: a conj?: 1 aromatic?: 1 131: 6 6->7 order: 1 conj?: 1 131: 7 1->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: a conj?: 1 aromatic?: 1 131: 9 9->10 order: a conj?: 1 aromatic?: 1 131: 10 6->0 order: a conj?: 1 aromatic?: 1 131: 11 10->0 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: c1(O)c2c(cc(O)n1)[nH]cn2 131: Atoms: 131: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 1 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: 1 conj?: 1 131: 1 0->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: 1 conj?: 1 131: 6 5->7 order: a conj?: 1 aromatic?: 1 131: 7 3->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: a conj?: 1 aromatic?: 1 131: 9 9->10 order: a conj?: 1 aromatic?: 1 131: 10 7->0 order: a conj?: 1 aromatic?: 1 131: 11 10->2 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: Oc1c2c(cc(O)n1)[nH]cn2 131: Atoms: 131: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: Bonds: 131: 0 0->1 order: 1 conj?: 1 131: 1 1->2 order: a conj?: 1 aromatic?: 1 131: 2 2->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: 1 conj?: 1 131: 6 5->7 order: a conj?: 1 aromatic?: 1 131: 7 3->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: a conj?: 1 aromatic?: 1 131: 9 9->10 order: a conj?: 1 aromatic?: 1 131: 10 7->1 order: a conj?: 1 aromatic?: 1 131: 11 10->2 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: SMI: n1c(O)cc2[nH]cnc2c1O 131: Atoms: 131: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 2 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: 3 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 6 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 131: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 131: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 9 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 131: 10 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 131: Bonds: 131: 0 0->1 order: a conj?: 1 aromatic?: 1 131: 1 1->2 order: 1 conj?: 1 131: 2 1->3 order: a conj?: 1 aromatic?: 1 131: 3 3->4 order: a conj?: 1 aromatic?: 1 131: 4 4->5 order: a conj?: 1 aromatic?: 1 131: 5 5->6 order: a conj?: 1 aromatic?: 1 131: 6 6->7 order: a conj?: 1 aromatic?: 1 131: 7 7->8 order: a conj?: 1 aromatic?: 1 131: 8 8->9 order: a conj?: 1 aromatic?: 1 131: 9 9->10 order: 1 conj?: 1 131: 10 9->0 order: a conj?: 1 aromatic?: 1 131: 11 8->4 order: a conj?: 1 aromatic?: 1 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: 131: 131: 131: 131: 131: 131: 131: 131: ------------------- 131: 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Morgan Fingerprints. 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Morgan Fingerprints using fromAtoms argument. 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Morgan Fingerprints as bit vects. 131: [05:16:04] done 129: Warning: Atom Count for residue GLU53A does not match expected count 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Morgan Fingerprints with feature invariants. 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test additional Morgan fingerprints options. 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Atom Codes. 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Atom Pairs. 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Atom Pairs part 2. 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Topological Torsions. 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Bulk Topological Torsions. 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: Warning: Atom Count for residue ARG64A does not match expected count 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Hashed Atom Pairs. 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Hashed torsions. 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Rooted Atom Pairs. 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test ignoring atoms in Atom Pairs. 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Rooted Topological Torsions. 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test ignoring atoms in Topological Torsions. 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test atom info from morgan fingerprints. 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test atom info from morgan fingerprints including Info Redundant Environments. 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] ------------------------------------- 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] ------------------------------------- 131: [05:16:04] ------------------------------------- 131: [05:16:04] ------------------------------------- 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Atom Pairs including info about chirality. 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test Topological Torsions including info about chirality. 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test GitHub Issue 25: fingerprint backwards compatibility. 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test GitHub Issue 151: PatternFingerprint problems 125: =>start test GETAWAY 125: [05:16:04] test on : 365 molecules done 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test 3D atom pairs. 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test GitHub Issue 195: GenMACCSKeys() raises an exception with an empty molecule 131: [05:16:04] done 131: [05:16:04] ------------------------------------- 131: [05:16:04] Test multithreading with the pattern FP 131: reading molecules 124/246 Test #125: testGETAWAY ............................ Passed 1.89 sec test 132 Start 132: testMHFPFingerprint 132: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/testMHFPFingerprint 132: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 132: Test timeout computed to be: 7200 132: [05:16:04] ------------------------------------- 131: pass 1 131: launch :0 131: launch :1 131: launch :2 131: launch :3 132: [05:16:04] Test MHFP fingerprint encoder initialization 132: [05:16:04] done 132: [05:16:04] ------------------------------------- 132: [05:16:04] Test MHFP shingling creation 128: Warning: Atom Count for residue GLU150A does not match expected count 132: [05:16:04] done 132: [05:16:04] ------------------------------------- 132: [05:16:04] Test MHFP hashing of string and uint arrays 132: [05:16:04] done 132: [05:16:04] ------------------------------------- 132: [05:16:04] Test SECFP fingerprint functionality 128: Warning: Atom Count for residue ASN157A does not match expected count 132: [05:16:04] done 125/246 Test #132: testMHFPFingerprint .................... Passed 0.08 sec test 133 Start 133: testFingerprintGenerators 133: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/testFingerprintGenerators 133: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 133: Test timeout computed to be: 7200 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test atom-pair fp generator 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test atom-pair fp generator with different arguments 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test compatibility between atom pair implementation for FingerprintGenerator and old atom pairs implementation 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] DEPRECATION WARNING: please use AtomPairGenerator 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test atom-pair additional output 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test Folded Atom Pairs. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test Rooted Atom Pairs. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test ignoring atoms in Atom Pairs. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test Atom Pairs including info about chirality. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test Morgan Fingerprints. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test morgan fp generator 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test Morgan Fingerprints using fromAtoms argument. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test Morgan Fingerprints as bit vects. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test Morgan Fingerprints with feature invariants. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test additional Morgan fingerprints options. 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test GitHub Issue 695: Include cis/trans stereochemistry when useChirality=true with the morgan fingerprints 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Single atoms setting radius 1 bits in Morgan fingerprints 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test different invariant generator combinations 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test invariant overriding 133: [05:16:04] done 133: [05:16:04] ------------------------------------- 133: [05:16:04] Test RDKit fp generator 129: Warning: Atom Count for residue LYS80A does not match expected count 131: pass 2 131: launch :0 131: launch :1 131: launch :2 131: launch :3 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test unfolded version of RDKFP 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test topological torsion fp generator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test Topological Torsions. 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test Folded torsions. 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test Bulk Topological Torsions. 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test Rooted Topological Torsions. 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test ignoring atoms in Topological Torsions. 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test Topological Torsions including info about chirality. 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test GitHub Issue 25: fingerprint backwards compatibility. 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test GitHub Issue 334: explicit Hs in SMILES modifies atom pair (and topological torsion) FP. 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test GitHub Issue 811: rooted atom fingerprint non identical for the same molecules #811 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test convenience and bulk fp calculation functions 98: 0,0 0 98: 0,1 0 98: 1,0 0 98: 1,1 0 98: 2,0 0 98: 2,1 0 126/246 Test #98: testEnumeration ........................ Passed 8.17 sec test 134 Start 134: fpTestCatch 134: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/fpTestCatch 134: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 134: Test timeout computed to be: 7200 134: Randomness seeded to: 2006596331 134: =============================================================================== 134: All tests passed (188 assertions in 16 test cases) 134: 129: Warning: Atom Count for residue GLU150A does not match expected count 127/246 Test #134: fpTestCatch ............................ Passed 0.05 sec test 135 Start 135: fpGenTestCatch 135: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/fpGenTestCatch 135: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 135: Test timeout computed to be: 7200 129: Warning: Atom Count for residue ASN157A does not match expected count 133: [05:16:05] done 133: [05:16:05] ------------------------------------- 133: [05:16:05] Test GitHub Issue #6958 133: [05:16:05] DEPRECATION WARNING: please use AtomPairGenerator 128/246 Test #133: testFingerprintGenerators .............. Passed 1.00 sec test 136 Start 136: pyTestGenerator 136: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap/testGenerators.py" 136: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap 136: Test timeout computed to be: 7200 135: Randomness seeded to: 2077429832 135: =============================================================================== 135: All tests passed (2737 assertions in 7 test cases) 135: 129/246 Test #135: fpGenTestCatch ......................... Passed 0.12 sec test 137 Start 137: pyTestMHFP 137: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap/testMHFP.py" 137: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap 137: Test timeout computed to be: 7200 120: =>start test GETAWAY custom 120: [05:16:06] test on : 365 molecules done 130/246 Test #120: testRDFcustom .......................... Passed 4.31 sec test 138 Start 138: testPartialCharges 138: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/testPartialCharges 138: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges 138: Test timeout computed to be: 7200 131/246 Test #138: testPartialCharges ..................... Passed 0.02 sec test 139 Start 139: pyPartialCharges 139: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/Wrap/testPartialCharges.py" 139: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap 139: Test timeout computed to be: 7200 136: .............. 136: ---------------------------------------------------------------------- 136: Ran 14 tests in 0.135s 136: 136: OK 137: ... 137: ---------------------------------------------------------------------- 137: Ran 3 tests in 0.124s 137: 137: OK 132/246 Test #137: pyTestMHFP ............................. Passed 0.59 sec test 140 Start 140: testMolTransforms 140: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/testMolTransforms 140: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms 140: Test timeout computed to be: 7200 140: *********************************************************** 140: Testing MolTransforms 140: --------------------------------- 140: test1Canonicalization 140: 140: --------------------------------- 140: testGetSetBondLength 140: 140: --------------------------------- 140: testGetSetAngle 140: 140: --------------------------------- 140: testGetSetDihedral 140: 140: --------------------------------- 140: testGetSetDihedralThroughTripleBond 140: 140: --------------------------------- 140: testGithub1262: PMI descriptors incorrect 140: 140: --------------------------------- 140: testGithub1908: CanonicalizeMol() distorting bond lengths 140: 140: --------------------------------- 140: testGithub4302: native computeCanonicalTransform() generates non-canonical coords 140: 140: --------------------------------- 140: testWeightedCentroid 140: 140: *********************************************************** 133/246 Test #140: testMolTransforms ...................... Passed 0.06 sec test 141 Start 141: molTransformsTestCatch 141: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/molTransformsTestCatch 141: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms 141: Test timeout computed to be: 7200 134/246 Test #136: pyTestGenerator ........................ Passed 0.68 sec test 142 Start 142: pyMolTransforms 142: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolTransforms/Wrap/testMolTransforms.py" 142: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap 142: Test timeout computed to be: 7200 141: Randomness seeded to: 2155381212 141: =============================================================================== 141: All tests passed (8 assertions in 2 test cases) 141: 135/246 Test #141: molTransformsTestCatch ................. Passed 0.05 sec test 143 Start 143: forceFieldHelpersCatch 143: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/forceFieldHelpersCatch 143: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers 143: Test timeout computed to be: 7200 143: Randomness seeded to: 3669697270 143: =============================================================================== 143: All tests passed (17 assertions in 2 test cases) 143: 139: ....... 139: ---------------------------------------------------------------------- 139: Ran 7 tests in 0.102s 139: 139: OK 136/246 Test #143: forceFieldHelpersCatch ................. Passed 0.06 sec test 144 Start 144: testMMFFForceFieldHelpers 144: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFForceFieldHelpers 144: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF 144: Test timeout computed to be: 7200 144: [05:16:06] ------------------------------------- 144: [05:16:06] Test MMFF atom types. 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing MMFF builder tools. 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing MMFF builder+minimization. 137/246 Test #139: pyPartialCharges ....................... Passed 0.50 sec test 145 Start 145: testMMFFForceFieldHelpersMultiThread 145: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFForceFieldHelpersMultiThread 145: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF 145: Test timeout computed to be: 7200 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing Issue239. 145: [05:16:06] ------------------------------------- 145: [05:16:06] Test MMFF multithreading 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing calcEnergy with passed coords. 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing calcGrad. 145: processing 145: launch :0 145: launch :1 145: launch :2 145: launch :3 145: launch :4 145: launch :5 145: launch :6 145: launch :7 145: launch :8 145: launch :9 145: launch :10 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing Issue242. 145: launch :11 145: launch :12 145: launch :13 145: launch :14 145: launch :15 145: launch :16 145: launch :17 145: launch :18 145: launch :19 145: launch :20 145: launch :21 145: launch :22 145: launch :23 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing github 308: crash during MMFF parameterization . 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing SFIssue1653802. 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Testing SFIssue2378119. 144: [05:16:06] done 144: [05:16:06] ------------------------------------- 144: [05:16:06] Test MMFF force-field parameter getters. 144: [05:16:06] ------------------------------------- 144: [05:16:06] Test MMFF multithreading 144: generating reference data 145: done 145: [05:16:07] done 138/246 Test #145: testMMFFForceFieldHelpersMultiThread ... Passed 0.36 sec test 146 Start 146: testUFFForceFieldHelpers 146: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/testUFFForceFieldHelpers 146: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF 146: Test timeout computed to be: 7200 146: [05:16:07] ------------------------------------- 146: [05:16:07] Test UFF atom labels. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Test UFF atom typer. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing UFF builder tools. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing UFF builder+minimization. 142: ........ 142: ---------------------------------------------------------------------- 142: Ran 8 tests in 0.061s 142: 142: OK 139/246 Test #142: pyMolTransforms ........................ Passed 0.68 sec test 147 Start 147: testCrystalForceField 147: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalForceField 147: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF 147: Test timeout computed to be: 7200 147: ------------------------------------- 147: Test CrystalFF torsional term. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing UFF special cases. 146: [05:16:07] UFFTYPER: Unrecognized charge state for atom: 0 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing Issue239. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing calcEnergy with passed coords. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing calcGrad. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing SFIssue1653802. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing SFIssue2378119. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Test UFF force-field parameter getters. 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing handling missing parameters. 146: [05:16:07] UFFTYPER: Unrecognized hybridization for atom: 0 146: [05:16:07] UFFTYPER: Unrecognized atom type: Cu+1 (0) 146: [05:16:07] UFFTYPER: Unrecognized hybridization for atom: 0 146: [05:16:07] UFFTYPER: Unrecognized atom type: Cu+1 (0) 144: processing 144: launch :0 144: launch :1 144: [05:16:07] Rep: 0 Mol:[05:16:07] Rep: 0 Mol:0 144: 1 144: [05:16:07] Rep: 0 Mol:5 144: [05:16:07] Rep: 0 Mol:9 144: [05:16:07] Rep: 0 Mol:4 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Testing SFIssue3009337. 146: [05:16:07] done 146: [05:16:07] ------------------------------------- 146: [05:16:07] Test UFF multithreading 144: launch :2 144: launch :3 144: [05:16:07] Rep: 0 Mol:13 144: [05:16:07] Rep: 0 Mol:2 146: generating reference data 144: [05:16:07] Rep: 0 Mol:17 144: [05:16:07] Rep: 0 Mol:3 144: [05:16:07] Rep: 0 Mol:8 144: [05:16:07] Rep: 0 Mol:12 144: [05:16:07] Rep: 0 Mol:16 144: [05:16:07] Rep: 0 Mol:6 144: [05:16:07] Rep: 0 Mol:21 144: [05:16:07] Rep: 0 Mol:10 144: [05:16:07] Rep: 0 Mol:25 140/246 Test #147: testCrystalForceField .................. Passed 0.14 sec test 148 Start 148: pyForceFieldHelpers 148: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/Wrap/testHelpers.py" 148: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap 148: Test timeout computed to be: 7200 144: [05:16:07] Rep: 0 Mol:20 144: [05:16:07] Rep: 0 Mol:29 144: [05:16:07] Rep: 0 Mol:7 144: [05:16:07] Rep: 0 Mol:11 144: [05:16:07] Rep: 0 Mol:15 144: [05:16:07] Rep: 0 Mol:24 144: [05:16:07] Rep: 0 Mol:28 144: [05:16:07] Rep: 0 Mol:19 144: [05:16:07] Rep: 0 Mol:23 144: [05:16:07] Rep: 0 Mol:27 144: [05:16:07] Rep: 0 Mol:14 144: [05:16:07] Rep: 0 Mol:31 144: [05:16:07] Rep: 0 Mol:18 144: [05:16:07] Rep: 0 Mol:22 144: [05:16:07] Rep: 0 Mol:26 144: [05:16:07] Rep: 0 Mol:30 144: [05:16:07] Rep: 20 Mol:1 144: [05:16:07] Rep: 20 Mol:5 144: [05:16:07] Rep: 20 Mol:9 144: [05:16:07] Rep: 20 Mol:13 144: [05:16:07] Rep: 20 Mol:17 144: [05:16:07] Rep: 20 Mol:21 144: [05:16:07] Rep: 20 Mol:25 144: [05:16:07] Rep: 20 Mol:0 144: [05:16:07] Rep: 20 Mol:4 144: [05:16:07] Rep: 20 Mol:29 144: [05:16:07] Rep: 20 Mol:3 144: [05:16:07] Rep: 20 Mol:7 144: [05:16:07] Rep: 20 Mol:11 144: [05:16:07] Rep: 20 Mol:15 144: [05:16:07] Rep: 20 Mol:19 144: [05:16:07] Rep: 20 Mol:23 144: [05:16:07] Rep: 20 Mol:27 144: [05:16:07] Rep: 20 Mol:31 144: [05:16:07] Rep: 20 Mol:8 144: [05:16:07] Rep: 20 Mol:12 144: [05:16:07] Rep: 20 Mol:16 144: [05:16:07] Rep: 20 Mol:20 144: [05:16:07] Rep: 20 Mol:24 144: [05:16:07] Rep: 20 Mol:28 144: [05:16:07] Rep: 20 Mol:2 144: [05:16:07] Rep: 20 Mol:6 144: [05:16:07] Rep: 20 Mol:10 144: [05:16:07] Rep: 20 Mol:14 144: [05:16:07] Rep: 20 Mol:18 144: [05:16:07] Rep: 20 Mol:22 144: [05:16:07] Rep: 20 Mol:26 144: [05:16:07] Rep: 20 Mol:30 144: [05:16:07] Rep: 40 Mol:1 144: [05:16:07] Rep: 40 Mol:5 144: [05:16:07] Rep: 40 Mol:9 144: [05:16:07] Rep: 40 Mol:13 144: [05:16:07] Rep: 40 Mol:17 144: [05:16:07] Rep: 40 Mol:21 144: [05:16:07] Rep: 40 Mol:25 144: [05:16:07] Rep: 40 Mol:29 144: [05:16:07] Rep: 40 Mol:3 144: [05:16:07] Rep: 40 Mol:7 144: [05:16:07] Rep: 40 Mol:11 144: [05:16:07] Rep: 40 Mol:15 144: [05:16:07] Rep: 40 Mol:19 144: [05:16:07] Rep: 40 Mol:23 144: [05:16:07] Rep: 40 Mol:27 144: [05:16:07] Rep: 40 Mol:31 144: [05:16:07] Rep: 40 Mol:0 144: [05:16:07] Rep: 40 Mol:4 144: [05:16:07] Rep: 40 Mol:8 144: [05:16:07] Rep: 40 Mol:12 144: [05:16:07] Rep: 40 Mol:16 144: [05:16:07] Rep: 40 Mol:20 144: [05:16:07] Rep: 40 Mol:24 144: [05:16:07] Rep: 40 Mol:28 146: processing 146: launch :0 146: launch :1 146: launch :2 146: launch :3 146: [05:16:07] Rep: 0 Mol:1 146: [05:16:07] Rep: 0 Mol:3 146: [05:16:07] Rep: 0 Mol:5 146: [05:16:07] Rep: 0 Mol:9 146: [05:16:07] Rep: 0 Mol:2 146: [05:16:07] Rep: 0 Mol:0 146: [05:16:07] Rep: 0 Mol:4 146: [05:16:07] Rep: 0 Mol:13 146: [05:16:07] Rep: 0 Mol:7 146: [05:16:07] Rep: 0 Mol:17 146: [05:16:07] Rep: 0 Mol:11 146: [05:16:07] Rep: 0 Mol:15 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 146: [05:16:07] Rep: 0 Mol:19 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: ..[05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 146: [05:16:07] Rep: 0 Mol:23 146: [05:16:07] Rep: [05:16:07] Rep: 0 Mol:6 146: 0 Mol:8 146: [05:16:07] Rep: 0 Mol:27 146: [05:16:07] Rep: 0 Mol:10 146: [05:16:07] Rep: 0 Mol:31 146: [05:16:07] Rep: 0 Mol:12 146: [05:16:07] Rep: 0 Mol:16 146: [05:16:07] Rep: 0 Mol:21 146: [05:16:07] Rep: 0 Mol:20 146: [05:16:07] Rep: 0 Mol:25 146: [05:16:07] Rep: 0 Mol:24 146: [05:16:07] Rep: 0 Mol:28 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 146: [05:16:07] Rep: 0 Mol:14 146: [05:16:07] Rep: 0 Mol:29 146: [05:16:07] Rep: 0 Mol:18 144: [05:16:07] Rep: 40 Mol:2 144: [05:16:07] Rep: 40 Mol:6 144: [05:16:07] Rep: 40 Mol:10 144: [05:16:07] Rep: 40 Mol:14 144: [05:16:07] Rep: 40 Mol:18 144: [05:16:07] Rep: 40 Mol:22 144: [05:16:07] Rep: 40 Mol:26 144: [05:16:07] Rep: 40 Mol:30 146: [05:16:07] Rep: 0 Mol:22 146: [05:16:07] Rep: 0 Mol:26 144: [05:16:07] Rep: 60 Mol:3 144: [05:16:07] Rep: 60 Mol:7 144: [05:16:07] Rep: 60 Mol:11 144: [05:16:07] Rep: 60 Mol:15 144: [05:16:07] Rep: 60 Mol:19 144: [05:16:07] Rep: 60 Mol:23 144: [05:16:07] Rep: 60 Mol:27 144: [05:16:07] Rep: 60 Mol:31 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 146: [05:16:07] Rep: 0 Mol:30 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 144: [05:16:07] Rep: 60 Mol:1 144: [05:16:07] Rep: 60 Mol:5 144: [05:16:07] Rep: 60 Mol:9 144: [05:16:07] Rep: 60 Mol:13 144: [05:16:07] Rep: 60 Mol:17 144: [05:16:07] Rep: 60 Mol:21 144: [05:16:07] Rep: 60 Mol:25 144: [05:16:07] Rep: 60 Mol:0 144: [05:16:07] Rep: 60 Mol:4 144: [05:16:07] Rep: 60 Mol:8 144: [05:16:07] Rep: 60 Mol:29 144: [05:16:07] Rep: 60 Mol:12 144: [05:16:07] Rep: 60 Mol:16 144: [05:16:07] Rep: 60 Mol:20 144: [05:16:07] Rep: 60 Mol:24 144: [05:16:07] Rep: 60 Mol:28 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: .[05:16:07] UFFTYPER: Unrecognized hybridization for atom: 0 148: [05:16:07] UFFTYPER: Unrecognized atom type: Cu+1 (0) 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: .[05:16:07] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: .[05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 144: [05:16:07] Rep: 80 Mol:3 144: [05:16:07] Rep: 80 Mol:7 144: [05:16:07] Rep: 80 Mol:11 144: [05:16:07] Rep: 80 Mol:15 144: [05:16:07] Rep: 80 Mol:19 144: [05:16:07] Rep: 80 Mol:23 144: [05:16:07] Rep: 80 Mol:27 144: [05:16:07] Rep: 80 Mol:31 148: ...[05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [05:16:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: ... 148: ---------------------------------------------------------------------- 148: Ran 19 tests in 0.240s 148: 148: OK 144: [05:16:08] Rep: 60 Mol:2 144: [05:16:08] Rep: 60 Mol:6 144: [05:16:08] Rep: 60 Mol:10 144: [05:16:08] Rep: 60 Mol:14 144: [05:16:08] Rep: 60 Mol:18 144: [05:16:08] Rep: 60 Mol:22 144: [05:16:08] Rep: 60 Mol:26 144: [05:16:08] Rep: 80 Mol:1 144: [05:16:08] Rep: 60 Mol:30 144: [05:16:08] Rep: 80 Mol:5 144: [05:16:08] Rep: 80 Mol:9 144: [05:16:08] Rep: 80 Mol:13 144: [05:16:08] Rep: 80 Mol:17 144: [05:16:08] Rep: 80 Mol:21 144: [05:16:08] Rep: 80 Mol:25 144: [05:16:08] Rep: 80 Mol:29 144: [05:16:08] Rep: 80 Mol:0 144: [05:16:08] Rep: 80 Mol:4 144: [05:16:08] Rep: 80 Mol:8 144: [05:16:08] Rep: 80 Mol:12 144: [05:16:08] Rep: 80 Mol:16 144: [05:16:08] Rep: 80 Mol:20 144: [05:16:08] Rep: 80 Mol:24 144: [05:16:08] Rep: 80 Mol:28 141/246 Test #148: pyForceFieldHelpers .................... Passed 0.70 sec test 149 Start 149: testDistGeomHelpers 149: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/testDistGeomHelpers 149: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers 149: Test timeout computed to be: 7200 149: [05:16:08] ******************************************************** 149: [05:16:08] Testing DistGeomHelpers 149: [05:16:08] --------------------------------- 149: [05:16:08] test2 149: 149: go 149: ------------------------------------- 149: 144: [05:16:08] Rep: 80 Mol:2 144: [05:16:08] Rep: 80 Mol:6 144: [05:16:08] Rep: 80 Mol:10 144: [05:16:08] Rep: 80 Mol:14 144: [05:16:08] Rep: 80 Mol:18 144: [05:16:08] Rep: 80 Mol:22 144: [05:16:08] Rep: 80 Mol:26 144: [05:16:08] Rep: 80 Mol:30 128: Warning: Atom Count for residue GLU5A does not match expected count 128: Warning: Atom Count for residue ASN39A does not match expected count 128: Warning: Atom Count for residue GLU53A does not match expected count 128: Warning: Atom Count for residue ARG64A does not match expected count 128: Warning: Atom Count for residue LYS80A does not match expected count 128: Warning: Atom Count for residue GLU150A does not match expected count 128: Warning: Atom Count for residue ASN157A does not match expected count 146: [05:16:08] Rep: 100 Mol:3 146: [05:16:08] Rep: 100 Mol:7 146: [05:16:08] Rep: 100 Mol:11 146: [05:16:08] Rep: 100 Mol:15 146: [05:16:08] Rep: 100 Mol:19 146: [05:16:08] Rep: 100 Mol:23 146: [05:16:08] Rep: 100 Mol:27 146: [05:16:08] Rep: 100 Mol:31 146: [05:16:08] Rep: 100 Mol:1 146: [05:16:08] Rep: 100 Mol:5 146: [05:16:08] Rep: 100 Mol:9 146: [05:16:08] Rep: 100 Mol:13 146: [05:16:08] Rep: 100 Mol:17 146: [05:16:08] Rep: 100 Mol:21 146: [05:16:08] Rep: 100 Mol:25 146: [05:16:08] Rep: 100 Mol:29 128: =============================================================================== 128: All tests passed (789 assertions in 11 test cases) 128: 142/246 Test #128: descriptorsTestCatch ................... Passed 5.15 sec test 150 Start 150: distGeomHelpersCatch 150: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/distGeomHelpersCatch 150: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers 150: Test timeout computed to be: 7200 144: [05:16:08] done 144: [05:16:08] ------------------------------------- 144: [05:16:08] Test MMFF multithreading2 146: [05:16:08] Rep: 100 Mol:0 146: [05:16:08] Rep: 100 Mol:4 146: [05:16:08] Rep: 100 Mol:8 146: [05:16:08] Rep: 100 Mol:12 146: [05:16:08] Rep: 100 Mol:16 146: [05:16:08] Rep: 100 Mol:20 146: [05:16:08] Rep: 100 Mol:24 146: [05:16:08] Rep: 100 Mol:28 150: Randomness seeded to: 3240862123 150: [05:16:08] [C:1][NH:2]!@;-[C:3](=[NH2:4])[NH2]: 100 101 102 104, [(1 0), (-1 100), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH2][C:1](=[NH2])[NH:2]!@;-[CH2:3][C:4]: 102 101 100 99, [(1 0), (1 0), (1 2.5), (1 0), (1 0), (1 0)] 150: [05:16:08] [OX2:1][CX4:2]!@;-[CX4:3][N:4]: 32 31 30 33, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [OX2:1][CX4:2]!@;-[CX4:3][N:4]: 48 46 45 49, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 36 37 38 39, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 37 38 39 40, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 38 39 40 41, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 97 98 99 100, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 98 99 100 101, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 0 1 2 3, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 1 2 4 5, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 20 22 23 24, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 22 23 25 26, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 34 36 37 38, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 66 67 68 69, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 84 85 86 87, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 96 97 98 99, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][CX4H2:2]!@;-[CX3:3]=[O:4]: 85 86 87 88, [(1 -1), (1 -0.5), (1 -0.2), (1 -0.3), (1 0), (1 -0.3)] 150: [05:16:08] [cH1:1][c:2]([cH1])!@;-[CX4H2:3][CX4:4]: 70 69 68 67, [(1 0), (1 3.6), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [*:1][X3,X2:2]=[X3,X2:3][*:4]: 101 102 104 220, [(1 0), (-1 100), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H0;r:3][CX4H1:4]: 15 13 12 8, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H0;r:3][CX4H1:4]: 22 20 19 15, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H0;r:3][CX4H1:4]: 67 75 77 81, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 4 62 61 60, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 8 6 5 4, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 30 28 27 22, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 36 34 33 30, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 45 43 42 36, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 81 82 84 85, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 93 94 96 97, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 97 105 107 52, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 90 92 93 94, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 6 5 4 117, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 28 27 22 133, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 34 33 30 144, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 43 42 36 149, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 62 61 60 181, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 82 84 85 202, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 94 96 97 210, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 105 107 52 171, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r{9-}:3][!#1:4]: 91 90 92 93, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][CX4;r{9-}:2]@;-[NX3;r{9-}:3][C:4]: 43 45 49 50, [(1 0), (1 0), (1 1), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][CX4;r{9-}:2]@;-[NX3;r{9-}:3][C:4]: 52 50 49 45, [(1 0), (1 0), (1 1), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][CX4;r{9-}:2]@;-[NX3;r{9-}:3][C:4]: 60 64 66 67, [(1 0), (1 0), (1 1), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][CX4;r{9-}:2]@;-[NX3;r{9-}:3][C:4]: 68 67 66 64, [(1 0), (1 0), (1 1), (1 0), (1 0), (1 0)] 150: [05:16:08] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 95 94 93 92, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [OX2:1][CX4;r{9-}:2]@;-[CX4;r{9-}:3][N:4]: 51 50 52 107, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [OX2:1][CX4;r{9-}:2]@;-[CX4;r{9-}:3][N:4]: 65 64 60 61, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 50 52 53 54, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 58 59 60 61, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 5 4 62 63, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 27 22 20 21, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 33 30 28 29, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 42 36 34 35, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 49 45 43 44, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 66 67 75 76, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 84 85 90 91, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [NH1:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 96 97 105 106, [(1 0), (-1 3), (1 0), (1 0), (1 0), (1 0)] 150: ----------- 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 2 1 10 9, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 14 12 11 9, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 4 3 2 1, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 16 15 14 12, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 1 10 9 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 12 11 9 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r{9-}:3][!#1:4]: 5 4 3 2, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r{9-}:3][!#1:4]: 17 16 15 14, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 0 1 2 3, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 13 12 14 15, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 4 6 7 8, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 6 7 8 9, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [!#1:1][CX4&r;r{9-}:2]@;-[CX4&r;r{9-}:3][!#1:4]: 7 8 9 10, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 4 6 16 17, [(1 0), (1 0), (-1 1), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][CX4;r{9-}:2]@;-[CX3;r{9-}:3]=[O:4]: 7 6 4 5, [(1 0), (1 0), (-1 1), (1 0), (1 0), (1 0)] 150: ----------- 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 13 14 16 3, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 10 12 13 14, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r{9-}:3][!#1:4]: 11 10 12 13, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 15 14 13 12, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 150: ----------- 150: ----------- 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 2 1 15 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 2 3 5 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 10 8 7 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 10 11 13 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 19 17 16 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 19 20 22 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 1 15 14 31, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 3 5 6 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 8 7 6 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 11 13 14 31, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 17 16 14 31, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 20 22 6 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 0 1 2 3, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 4 3 2 1, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 9 8 10 11, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 12 11 10 8, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 18 17 19 20, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] [O:1]=[CX3;r{9-}:2]([NH1])@;-[CH2;r{9-}:3][CX3:4]=O: 21 20 19 17, [(1 0), (1 0), (1 2), (1 0), (1 0), (1 0)] 150: [05:16:08] UFFTYPER: Unrecognized atom type: Pt5+2 (1) 150: [05:16:08] UFFTYPER: Unrecognized charge state for atom: 1 150: [05:16:08] UFFTYPER: Unrecognized charge state for atom: 1 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Test GitHub Issue 258: Bad pattern fingerprint for query molecule 146: [05:16:08] Rep: 100 Mol:2 146: [05:16:08] Rep: 100 Mol:6 146: [05:16:08] Rep: 100 Mol:10 146: [05:16:08] Rep: 100 Mol:14 146: [05:16:08] Rep: 100 Mol:18 146: [05:16:08] Rep: 100 Mol:22 146: [05:16:08] Rep: 100 Mol:26 146: [05:16:08] Rep: 100 Mol:30 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Test GitHub Issue 334: explicit Hs in SMILES modifies atom pair (and topological torsion) FP. 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Test GitHub Issue 695: Include cis/trans stereochemistry when useChirality=true with the morgan fingerprints 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Test GitHub Issue 811: rooted atom fingerprint non identical for the same molecules #811 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Test unfolded version of RDKFP 131: [05:16:08] ------------------------------------- 131: [05:16:08] Test bitinfo of RDKFP 131: 562: [ 2 ], 131: 709: [ 0 1 ], 131: 1118: [ 0 1 2 ], 131: 1183: [ 1 2 ], 131: 1233: [ 0 1 2 ], 131: 1308: [ 0 ], [ 1 ], 131: 1339: [ 2 ], 131: 1728: [ 1 2 ], 131: 1772: [ 0 ], [ 1 ], 131: 1813: [ 0 1 ], 131: ------------ 131: [05:16:08] ------------------------------------- 131: [05:16:08] Single atoms setting radius 1 bits in Morgan fingerprints 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Github #879: Pattern fingerprint should set bits for single-atom fragments. 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Github #1496: Pattern fingerprint setting bad bits for degree zero atoms 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Github #1793: Fingerprint segfaults with branchedPaths=False and useHs=False 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Github #1993: fingerprinters that use R/S labels should force a call to assignStereochemistry() if it hasn't already been called 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use AtomPairGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Github #2115: BitInfo not complete for RDKFingerprint 131: [05:16:08] done 131: [05:16:08] ------------------------------------- 131: [05:16:08] Github #3723: Fingerprint crash for mols with Zero order bonds 131: [05:16:08] done 150: [05:16:08] UFFTYPER: Unrecognized charge state for atom: 1 143/246 Test #131: testFingerprints ....................... Passed 4.15 sec test 151 Start 151: pyDistGeomHelpers 151: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/Wrap/testDistGeom.py" 151: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap 151: Test timeout computed to be: 7200 150: [05:16:08] UFFTYPER: Unrecognized charge state for atom: 5 150: [05:16:08] UFFTYPER: Unrecognized charge state for atom: 5 150: [05:16:08] UFFTYPER: Unrecognized charge state for atom: 5 150: [05:16:08] UFFTYPER: Unrecognized charge state for atom: 6 144: [05:16:08] done 144: [05:16:08] ------------------------------------- 144: [05:16:08] Test MMFF multithreading3 150: [05:16:08] UFFTYPER: Unrecognized charge state for atom: 6 150: [05:16:09] UFFTYPER: Unrecognized charge state for atom: 6 151: .[05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: ..[05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: ..[05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 146: [05:16:09] done 146: [05:16:09] ------------------------------------- 146: [05:16:09] Test UFF multithreading2 151: .[05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 144: [05:16:09] done 144: [05:16:09] ------------------------------------- 144: [05:16:09] Testing github 162: Incorrect SMILES after MMFF parameterization . 144: [05:16:09] done 144: [05:16:09] ------------------------------------- 144: [05:16:09] Testing github 224: crash during MMFF parameterization . 144: [05:16:09] done 144: [05:16:09] ------------------------------------- 144: [05:16:09] Testing github6728: crash due to missing stretch-bend params. 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 144/246 Test #144: testMMFFForceFieldHelpers .............. Passed 2.78 sec test 152 Start 152: testMolAlign 152: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/testMolAlign 152: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign 152: Test timeout computed to be: 7200 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 152: *********************************************************** 152: Testing MolAlign 152: --------------------------------- 152: test1MolAlign 152: 152: --------------------------------- 152: test1GetBestRMS 152: 152: --------------------------------- 152: test1MolWithQueryAlign 152: 152: --------------------------------- 152: test2AtomMap 152: 152: --------------------------------- 152: test3Weights 152: 152: --------------------------------- 152: testIssue241 152: 152: *********************************************************** 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 145/246 Test #152: testMolAlign ........................... Passed 0.15 sec test 153 Start 153: testO3AAlign 153: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/testO3AAlign 153: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign 153: Test timeout computed to be: 7200 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:09] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:10] Molecule does not have explicit Hs. Consider calling AddHs() 146: [05:16:10] done 146: [05:16:10] ------------------------------------- 146: [05:16:10] Test UFF multithreading3 151: .[05:16:10] Molecule does not have explicit Hs. Consider calling AddHs() 149: [05:16:08] --------------------------------- 149: [05:16:08] test3 149: 149: [05:16:08] --------------------------------- 149: [05:16:08] test4 149: 149: [05:16:08] --------------------------------- 149: [05:16:08] test5 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] test6 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] test15Dists 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] test Issue 215 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testMultipleConfs 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testMultipleConfsExpTors 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testIssue227 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testIssue236 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testOrdering 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testIssue244 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testIssue251 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testIssue276 149: [05:16:09] --------------------------------- 149: [05:16:09] testIssue284 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testIssue285 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testIssue355 149: 149: [05:16:09] --------------------------------- 149: [05:16:09] testRandomCoords 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test sf.net issue 1989539 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test sf.net issue 2091864 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test constrained embedding 149: 149: [05:16:10] ssd: 0.0752641 149: [05:16:10] ssd: 0.0659363 150: [05:16:10] UFFTYPER: Warning: hybridization set to SP3 for atom 6 150: [05:16:10] UFFTYPER: Warning: hybridization set to SP3 for atom 6 151: [05:16:10] Molecule does not have explicit Hs. Consider calling AddHs() 149: [05:16:10] --------------------------------- 149: [05:16:10] test sf.net issue 2091974 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test sf.net issue 2835784 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test sf.net issue 3019283 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test sf.net issue 3238580 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test sf.net issue 3483968 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test github issue 55 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test1 149: 149: [05:16:10] --------------------------------- 149: [05:16:10] test multi-threading 149: 149: building molecules 149: generating reference data 150: [05:16:10] UFFTYPER: Warning: hybridization set to SP3 for atom 6 150: [05:16:10] UFFTYPER: Warning: hybridization set to SP3 for atom 11 150: [05:16:10] UFFTYPER: Warning: hybridization set to SP3 for atom 11 150: [05:16:10] UFFTYPER: Warning: hybridization set to SP3 for atom 11 151: [05:16:10] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:10] Molecule does not have explicit Hs. Consider calling AddHs() 146: [05:16:10] done 146: [05:16:10] ------------------------------------- 146: [05:16:10] Testing GitHubIssue62. 146: [05:16:10] beta-lactam 39.6387 146: [05:16:10] cyclopropanone 174.698 146: [05:16:10] aziridine 337.986 146: [05:16:10] aziridinone 115.248 146: [05:16:10] isobutene 2.48217 146: [05:16:10] acetone 1.91788 146: [05:16:10] cyclopentanone 10.1648 146: [05:16:10] cyclopropene 99.4921 146: [05:16:10] cyclobutene 41.0156 146: [05:16:10] cyclopropane 267.236 146: [05:16:10] gamma-lactam 15.7471 146: [05:16:10] trans-2,3-diphenylcyclopropan-1-one 203.398 146: [05:16:10] cis-2,3-diphenylcyclopropan-1-one 206.852 146: [05:16:10] 2,3-diphenylcyclopropa-2-en-1-one 20.0443 146: [05:16:10] cyclopropylidencyclobutane 218.879 129: Warning: Atom Count for residue GLU5A does not match expected count 129: Warning: Atom Count for residue ASN39A does not match expected count 129: Warning: Atom Count for residue GLU53A does not match expected count 129: Warning: Atom Count for residue ARG64A does not match expected count 129: Warning: Atom Count for residue LYS80A does not match expected count 129: Warning: Atom Count for residue GLU150A does not match expected count 129: Warning: Atom Count for residue ASN157A does not match expected count 146: [05:16:10] diphenylmethylidencyclobutane 79.6139 146: [05:16:10] done 146: [05:16:10] ------------------------------------- 146: [05:16:10] Test Github Issue 613: UFF Atom type not properly assigned to lanthanides. 146: [05:16:10] done 146: [05:16:10] ------------------------------------- 146: [05:16:10] Test square planar complexes 146: [05:16:10] done 146: [05:16:10] ------------------------------------- 146: [05:16:10] Test octahedral complexes 146: [05:16:10] done 146/246 Test #146: testUFFForceFieldHelpers ............... Passed 3.64 sec test 154 Start 154: molAlignCatchTest 154: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/molAlignCatchTest 154: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign 154: Test timeout computed to be: 7200 129: .[05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: .[05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: ..[05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: .[05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: ...[05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 129: [05:16:10] DEPRECATION WARNING: please use MorganGenerator 151: [05:16:10] Molecule does not have explicit Hs. Consider calling AddHs() 129: ....[05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: ....[05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: [05:16:10] DEPRECATION WARNING: please use AtomPairGenerator 129: .[05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: ..[05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: .[05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: [05:16:10] DEPRECATION WARNING: please use TopologicalTorsionGenerator 129: ... 129: ---------------------------------------------------------------------- 129: Ran 31 tests in 6.835s 129: 129: OK 129: exactmw 78.046950192 129: amw 78.11399999999999 129: lipinskiHBA 0.0 129: lipinskiHBD 0.0 129: NumRotatableBonds 0.0 129: NumHBD 0.0 129: NumHBA 0.0 129: NumHeavyAtoms 6.0 129: NumAtoms 12.0 129: NumHeteroatoms 0.0 129: NumAmideBonds 0.0 129: FractionCSP3 0.0 129: NumRings 1.0 129: NumAromaticRings 1.0 129: NumAliphaticRings 0.0 129: NumSaturatedRings 0.0 129: NumHeterocycles 0.0 129: NumAromaticHeterocycles 0.0 129: NumSaturatedHeterocycles 0.0 129: NumAliphaticHeterocycles 0.0 129: NumSpiroAtoms 0.0 129: NumBridgeheadAtoms 0.0 129: NumAtomStereoCenters 0.0 129: NumUnspecifiedAtomStereoCenters 0.0 129: labuteASA 37.43140311949697 129: tpsa 0.0 129: CrippenClogP 1.6866 129: CrippenMR 26.441999999999993 129: chi0v 3.464101615137755 129: chi1v 2.0000000000000004 129: chi2v 0.6666666666666671 129: chi3v 0.6666666666666671 129: chi4v 0.38490017945975075 129: chi0n 3.464101615137755 129: chi1n 2.0000000000000004 129: chi2n 0.6666666666666671 129: chi3n 0.6666666666666671 129: chi4n 0.38490017945975075 129: hallKierAlpha -0.78 129: kappa1 3.4115708812260532 129: kappa2 1.6057694396735218 129: kappa3 0.5823992601400448 129: Phi 0.9130327103921437 129: CustomNumAtoms 6.0 129: exactmw 78.046950192 129: lipinskiHBA 0.0 154: Randomness seeded to: 1058008636 154: 40985485 154: 26050861 147/246 Test #129: pyMolDescriptors ....................... Passed 7.46 sec test 155 Start 155: pyMolAlign 155: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/Wrap/testMolAlign.py" 155: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap 155: Test timeout computed to be: 7200 151: [05:16:10] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:11] Molecule does not have explicit Hs. Consider calling AddHs() 154: 704883067 151: [05:16:11] Molecule does not have explicit Hs. Consider calling AddHs() 149: validating reference data 151: [05:16:11] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:12] Molecule does not have explicit Hs. Consider calling AddHs() 154: 464857956 154: =============================================================================== 154: All tests passed (73 assertions in 3 test cases) 154: 148/246 Test #154: molAlignCatchTest ...................... Passed 1.31 sec test 156 Start 156: testFeatures 156: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 156: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures 156: Test timeout computed to be: 7200 156: [05:16:12] ------------------------------------- 156: [05:16:12] AtomType parser testing. 156: [05:16:12] SMARTS Parse Error: syntax error while parsing: [$([!$([NH0])_100;N,O,$([S])_101,$([N,O)_102])_103] 156: [05:16:12] SMARTS Parse Error: check for mistakes around position 40: 156: [05:16:12] ,O,$([S])_101,$([N,O)_102])_103] 156: [05:16:12] ~~~~~~~~~~~~~~~~~~~~^ 156: [05:16:12] SMARTS Parse Error: Failed parsing SMARTS '[$([!$([NH0])_100;N,O,$([S])_101,$([N,O)_102])_103]' for input: '[$([!$([NH0]);N,O,$([S]),$([N,O)])]' 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] FeatureDefinition parser testing. 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Test pulling feat defs from a string. 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] FeatureDef functionality testing. 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] FeatureFactory testing. 156: [05:16:12] 1 156: [05:16:12] 2 156: [05:16:12] 3 156: [05:16:12] 4 156: [05:16:12] 5 156: [05:16:12] 6 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Feature Location testing. 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Test building a FeatureFactory from a file 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Testing Issue 224. 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Testing Issue 225. 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Test Issue346 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Test Issue347 156: [05:16:12] done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Testing Issue 348. 156: [05:16:12] SMARTS Parse Error: syntax error while parsing: [C[C] 156: [05:16:12] SMARTS Parse Error: check for mistakes around position 3: 156: [05:16:12] [C[C] 156: [05:16:12] ~~^ 156: [05:16:12] SMARTS Parse Error: Failed parsing SMARTS '[C[C]' for input: '[C[C]' 156: [05:16:12] ------------------------------------- 156: [05:16:12] Testing Nested AtomType definitions. 156: [$([$([$([C;!$(C=[O,N,P,S]);!$(C#N)]),c]);R])] 156: [05:16:12] ------------------------------------- 156: [05:16:12] Testing Github Issue #252: crash when calling getPos() with no conformer. 156: [05:16:12] expect a precondition failure message below 156: [05:16:12] 156: 156: **** 156: Pre-condition Violation 156: molecule has no conformers 156: Violation occurred on line 37 in file ./Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp 156: Failed Expression: dp_mol->getNumConformers() 156: ---------- 156: Stacktrace: 156: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 156: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 156: 2# RDKit::MolChemicalFeature::getPos(int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitMolChemicalFeatures.so.1 156: 3# RDKit::MolChemicalFeature::getPos() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitMolChemicalFeatures.so.1 156: 4# 0x0000AAAAC1BEC0C0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 156: 5# 0x0000AAAAC1BE4628 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 156: 6# 0x0000FFFF8683255C in /usr/lib/aarch64-linux-gnu/libc.so.6 156: 7# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 156: 8# 0x0000AAAAC1BE47F0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 156: ---------- 156: **** 156: 156: [05:16:12] Done 156: [05:16:12] ------------------------------------- 156: [05:16:12] Testing github 2077: add confId argument to MolChemicalFeatureFactor::getFeaturesForMol() 156: [05:16:12] done 149/246 Test #156: testFeatures ........................... Passed 0.04 sec test 157 Start 157: pyChemicalFeatures 157: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/Wrap/testChemicalFeatures.py" 157: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap 157: Test timeout computed to be: 7200 151: [05:16:12] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:12] Molecule does not have explicit Hs. Consider calling AddHs() 157: .[05:16:12] Molecule does not have explicit Hs. Consider calling AddHs() 157: .[05:16:12] Molecule does not have explicit Hs. Consider calling AddHs() 157: ..[05:16:12] Molecule does not have explicit Hs. Consider calling AddHs() 157: .[05:16:12] Molecule does not have explicit Hs. Consider calling AddHs() 157: .[05:16:12] SMARTS Parse Error: syntax error while parsing: [N,O;!HQ] 157: [05:16:12] SMARTS Parse Error: check for mistakes around position 8: 157: [05:16:12] [N,O;!HQ] 157: [05:16:12] ~~~~~~~^ 157: [05:16:12] SMARTS Parse Error: Failed parsing SMARTS '[N,O;!HQ]' for input: '[N,O;!HQ]' 157: ... 157: ---------------------------------------------------------------------- 157: Ran 9 tests in 0.120s 157: 157: OK 150/246 Test #157: pyChemicalFeatures ..................... Passed 0.63 sec test 158 Start 158: testShapeHelpers 158: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/testShapeHelpers 158: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers 158: Test timeout computed to be: 7200 158: *********************************************************** 158: Testing ShapeHelpers 158: --------------------------------- 158: test1Encode 158: 158: --------------------------------- 158: test2Compare 158: 158: --------------------------------- 158: testGithub4364 158: 158: *********************************************************** 151/246 Test #158: testShapeHelpers ....................... Passed 0.04 sec test 159 Start 159: pyShapeHelpers 159: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/Wrap/testShapeHelpers.py" 159: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap 159: Test timeout computed to be: 7200 151: .[05:16:12] Molecule does not have explicit Hs. Consider calling AddHs() 159: . 159: ---------------------------------------------------------------------- 159: Ran 1 test in 0.062s 159: 159: OK 159: Testing Shape Helpers wrapper 152/246 Test #159: pyShapeHelpers ......................... Passed 0.50 sec test 160 Start 160: testMolCatalog 160: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/testMolCatalog 160: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog 160: Test timeout computed to be: 7200 153/246 Test #160: testMolCatalog ......................... Passed 0.03 sec test 161 Start 161: pyMolCatalog 161: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/Wrap/rough_test.py" 161: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap 161: Test timeout computed to be: 7200 153: *********************************************************** 153: Testing O3AAlign 153: --------------------------------- 153: testMMFFO3A 153: 153: --------------------------------- 153: testMMFFO3A with pre-computed dmat and MolHistogram 153: 153: --------------------------------- 153: testMMFFO3A with constraints 153: 153: --------------------------------- 153: testMMFFO3A with variable weight constraints followed by local-only optimization 153: 153: --------------------------------- 153: testCrippenO3A 153: 153: --------------------------------- 153: testCrippenO3A with pre-computed dmat and MolHistogram 153: 153: --------------------------------- 153: testCrippenO3A with constraints 153: 153: --------------------------------- 153: testCrippenO3A with variable weight constraints followed by local-only optimization 153: 153: --------------------------------- 153: testMMFFO3A multithreading 153: 153: generating reference data 149: processing 149: launch :0 149: launch :1 149: launch :2 149: launch :3 161: . 161: ---------------------------------------------------------------------- 161: Ran 1 test in 0.005s 161: 161: OK 154/246 Test #161: pyMolCatalog ........................... Passed 0.52 sec test 162 Start 162: moldraw2DTest1 162: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DTest1 162: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D 162: Test timeout computed to be: 7200 162: ----------------- Test 1 162: file test1_1.svg gave hash 3840925078U not the expected 1617157703U 162: file test1_2.svg gave hash 4194425583U not the expected 1799670018U 162: file test1_3.svg gave hash 2250867576U not the expected 2382509631U 162: file test1_4.svg gave hash 3594410820U not the expected 4252277495U 162: file test1_5.svg gave hash 1851587463U not the expected 2811480876U 162: file test1_6.svg gave hash 2011746003U not the expected 2635907956U 162: Done 162: ----------------- Test 2 162: file test2_1.png gave hash 3986971853U not the expected 638584804U 162: file test2_2.png gave hash 2592863213U not the expected 610424244U 162: file test2_3.png gave hash 2294574389U not the expected 2179746375U 162: Done 162: ----------------- Test 4 162: file test4_1.png gave hash 3462840168U not the expected 3993974247U 162: file test4_1.svg gave hash 3190217401U not the expected 4157966746U 162: Done 162: ----------------- Test 5 162: file test5_1.png gave hash 1481971426U not the expected 571291290U 162: file test5_1.svg gave hash 1295559538U not the expected 4074479420U 162: file test5_2.png gave hash 408007297U not the expected 97265124U 162: file test5_3.png gave hash 1430199106U not the expected 606188176U 162: Done 162: ----------------- Test 6 (atom labels) 162: file test6_1.svg gave hash 3280384589U not the expected 3623418420U 162: file test6_2.svg gave hash 501263637U not the expected 3885689795U 162: file test6_3.svg gave hash 2009537997U not the expected 2753286335U 162: Done 162: ----------------- Test 7 (backgrounds) 162: file test7_1.svg gave hash 843981570U not the expected 1967202587U 162: file test7_1.png gave hash 2605212490U not the expected 1322246680U 162: file test7_2.svg gave hash 282341648U not the expected 4217504234U 162: file test7_2.png gave hash 2496336878U not the expected 1499012715U 162: Done 162: ----------------- Test8: PrepareMolDrawing 162: Done 162: ----------------- Test multi-threaded drawing 162: reading molecules 162: generating reference drawings 162: processing 162: launch :0 162: launch :1 162: launch :2 162: launch :3 153: processing 153: launch :0 153: launch :1 153: launch :2 153: launch :3 162: Done 162: ----------------- Test Github #781: Rendering single-atom molecules 162: file testGithub781_3.svg gave hash 1424857602U not the expected 1463918610U 162: Done 162: ----------------- Test 3 162: file test3_1.png gave hash 1283919575U not the expected 675908852U 162: file test3_1.svg gave hash 1328776415U not the expected 586189704U 162: file test3_2.png gave hash 4040402152U not the expected 2452584093U 162: file test3_2.svg gave hash 1481229521U not the expected 1700916148U 162: file test3_3.png gave hash 3081615373U not the expected 1907006999U 162: file test3_3.svg gave hash 2929562003U not the expected 1375178959U 162: file test3_4.png gave hash 3529036785U not the expected 2305641511U 162: file test3_4.svg gave hash 587248216U not the expected 187720898U 162: file test3_5.png gave hash 2758251182U not the expected 3842605920U 162: file test3_5.svg gave hash 1096665289U not the expected 300865579U 162: file test3_6.png gave hash 3828082483U not the expected 662622011U 162: file test3_6.svg gave hash 132485380U not the expected 729637096U 162: file test3_7.png gave hash 3664813892U not the expected 469729412U 162: file test3_7.svg gave hash 2714589700U not the expected 2700118064U 162: Done 162: ----------------- Test Github774: upside-down drawings 162: file test774_1.png gave hash 15835157U not the expected 428322245U 162: file test774_1.svg gave hash 493103591U not the expected 1108618931U 162: file test774_2.png gave hash 835177286U not the expected 4095288521U 162: file test774_2.svg gave hash 439562358U not the expected 577567569U 162: Done 162: ----------------- Test 9 (molecule legends) 162: file test9_1.svg gave hash 1315528346U not the expected 1484349178U 162: Done 162: ----------------- Test Github852: Lines used to wedge bonds are too thick 162: file test852_1.png gave hash 4160048374U not the expected 271517011U 162: file test852_1.svg gave hash 508042113U not the expected 2306783336U 162: file test852_2.png gave hash 101373672U not the expected 967452082U 162: file test852_2.svg gave hash 1235654907U not the expected 936665195U 162: ---------------- 162: file test852_2a.svg gave hash 3083849041U not the expected 3499587182U 162: ---------------- 162: file test852_2b.svg gave hash 3189714155U not the expected 2141021605U 162: ---------------- 162: file test852_2c.svg gave hash 1651720250U not the expected 465009830U 162: ---------------- 162: file test852_2d.svg gave hash 3277332536U not the expected 714117851U 162: Done 162: ----------------- Test Github860: Atom symbols in wrong order if bond comes from right 162: file test860_1.png gave hash 1469402068U not the expected 2835587240U 162: file test860_1.svg gave hash 718471937U not the expected 4071399203U 162: file test860_2.png gave hash 3737792988U not the expected 1116015475U 162: file test860_2.svg gave hash 4123557700U not the expected 3926063275U 162: file test860_3.png gave hash 2286418920U not the expected 1872467868U 162: file test860_3.svg gave hash 1139264144U not the expected 2583192182U 162: Done 162: ----------------- Test Github #910: ugly coordinates generated for peptide chains 162: file test910_1.svg gave hash 285277080U not the expected 2101353772U 162: file test910_2.svg gave hash 2184604098U not the expected 3090433026U 162: Done 162: ----------------- Test Github #932: mistake in SVG for wedged bonds 162: Done 162: ----------------- Test Github #953: default color should not be cyan 162: Done 162: ----------------- Test Github #983: wedged bonds between chiral centers drawn improperly 162: file test983_1.svg gave hash 977581182U not the expected 2373378601U 162: file test983_2.svg gave hash 1176297024U not the expected 2571223561U 162: Done 162: ----------------- Test Deuterium, Tritium 162: Done 162: ----------------- Test crossed bonds 162: file crossed_bonds.svg gave hash 2357548724U not the expected 3239666213U 162: Done 162: ----------------- Testing drawing a second molecule 162: file test10_1.svg gave hash 3149901024U not the expected 502155973U 162: file test10_2.svg gave hash 762048470U not the expected 3289667916U 162: file test10_3.svg gave hash 2365222328U not the expected 2681596657U 162: file test10_4.svg gave hash 1082559408U not the expected 2620790292U 162: file test10_5.svg gave hash 955314118U not the expected 2715569518U 162: file test10_6.svg gave hash 3863669925U not the expected 2984792612U 162: Done 162: ----------------- Testing drawing a grid of molecules 162: file test11_1.svg gave hash 2252080194U not the expected 568621130U 162: file test11_2.svg gave hash 736149105U not the expected 1278518938U 162: Done 162: ----------------- Testing drawMolecules 162: file test12_1.svg gave hash 4164245664U not the expected 826649652U 162: file test12_5.svg gave hash 276992328U not the expected 3309074342U 162: file test12_3.svg gave hash 4115567988U not the expected 3930752601U 162: file test12_4.svg gave hash 4115567988U not the expected 3930752601U 162: file test12_2.svg gave hash 1965660361U not the expected 3096703157U 162: Done 162: ----------------- Test JSON Configuration 162: file test13_1.svg gave hash 3950170009U not the expected 3606927863U 162: Done 162: ----------------- Testing github 1090: escape html characters in SVG output 162: Done 162: ----------------- Testing github 1035: overflow bug in SVG color generation 162: Done 162: ----------------- Testing github 1271: MolDraw2D not drawing anything for molecules aligned with the X or Y axes 162: file test1271_5.svg gave hash 30235138U not the expected 1050442325U 162: Done 162: ----------------- Testing github 1322: add custom atom labels 162: file test1322_1.svg gave hash 1987069228U not the expected 843693353U 162: file test1322_2.svg gave hash 2060269415U not the expected 2204609576U 162: Done 162: ----------------- Testing use of a black & white palette 162: file test14_1.svg gave hash 2593240709U not the expected 3999745197U 162: file test14_2.svg gave hash 1180313442U not the expected 1367250174U 162: Done 162: ----------------- Testing use of continuous highlighting with drawMolecules 162: file test15_1.svg gave hash 2305259583U not the expected 2704862730U 162: file test15_2.svg gave hash 2442984749U not the expected 659023204U 162: Done 162: ----------------- Test 17 - Testing maximum font size 162: file test17_1.svg gave hash 2260184712U not the expected 75329691U 162: file test17_2.svg gave hash 659077001U not the expected 2699803606U 162: file test17_3.svg gave hash 1926066932U not the expected 2996396838U 162: file test17_4.svg gave hash 4133942323U not the expected 2390212603U 162: Done 162: ----------------- Testing github 1829: crash when drawMolecules() is called with an empty list 162: Done 162: ----------------- Testing use of fixed scales for drawing. 162: file test18_1.svg gave hash 3803337242U not the expected 1704156856U 162: file test18_2.svg gave hash 1162085066U not the expected 597526679U 162: file test18_3.svg gave hash 611461919U not the expected 3425044116U 162: file test18_4.svg gave hash 1663260716U not the expected 1519252882U 162: file test18_5.svg gave hash 806463379U not the expected 486224214U 162: file test18_6.svg gave hash 2349283164U not the expected 3016814772U 162: file test18_7.svg gave hash 4093037200U not the expected 926168958U 162: Done 162: ----------------- Testing rotation of 2D drawing. 162: file test19_1.svg gave hash 407580005U not the expected 4060393720U 162: file test19_2.svg gave hash 2240088107U not the expected 4171949096U 162: Done 162: ----------------- Testing inclusion of molecule metadata 162: file test16_1.svg gave hash 4200111826U not the expected 62134348U 162: file test16_2.svg gave hash 2122610691U not the expected 3050459518U 162: Done 162: ----------------- Testing Github2063: Drawing racemic bond stereo as crossed bonds should be the default 162: file testGithub2063_1.svg gave hash 992781977U not the expected 1908318348U 162: file testGithub2063_2.svg gave hash 992781977U not the expected 1908318348U 162: Done 162: ----------------- Testing Github2151: MolDraw2D: line width should be controlled by MolDrawOptions 162: file testGithub2151_1.svg gave hash 2395078931U not the expected 4119581143U 162: file testGithub2151_2.svg gave hash 1129101623U not the expected 425960913U 162: Done 162: ----------------- Testing testGithub2762: MolDraw2D: HCl and ethane should be drawn 162: Done 162: ----------------- Testing testGithub2931: multi-coloured molecule highlights. 162: file testGithub2931_1.svg gave hash 3546086819U not the expected 3635831631U 162: file testGithub2931_2.svg gave hash 1878682670U not the expected 2281185190U 162: file testGithub2931_3.svg gave hash 3365274231U not the expected 2885834646U 162: file testGithub2931_4.svg gave hash 2300990986U not the expected 709559976U 162: Done 162: ----------------- Testing annotation of 2D Drawing. 162: file test20_1.png gave hash 1938743260U not the expected 200877868U 162: file test20_1.svg gave hash 2129450275U not the expected 4276517022U 162: file test20_2.png gave hash 4083668985U not the expected 1651164846U 162: file test20_2.svg gave hash 2507367286U not the expected 2037634551U 162: file test20_3.png gave hash 1520659280U not the expected 1463603076U 162: file test20_3.svg gave hash 2727796707U not the expected 2689385188U 162: file test20_4.png gave hash 3326508190U not the expected 1714613205U 162: file test20_4.svg gave hash 3418327955U not the expected 4113839132U 162: Done 162: ----------------- Test 21 - different font 162: file test21_1.svg gave hash 2878173336U not the expected 390968884U 162: [05:16:22] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/No_Such_Font_File.ttf not found. 162: [05:16:22] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file test21_2.svg gave hash 216260646U not the expected 3050176664U 162: Done 162: ----------------- Test 22 - draw explicit methyls. 162: file test22_1.svg gave hash 3426768357U not the expected 3688394300U 162: file test22_2.svg gave hash 1936546203U not the expected 1963311622U 162: Done 162: ----------------- Testing drawing of legends. 162: file testGithub3112_1.svg gave hash 3309789269U not the expected 75452578U 162: file testGithub3112_2.svg gave hash 1712616944U not the expected 2379426157U 162: file testGithub3112_3.svg gave hash 1478581410U not the expected 102822156U 162: file testGithub3112_4.svg gave hash 3119679941U not the expected 497518508U 162: Done 162: ----------------- Test Github 3305 - change and scale line widths. 162: file testGithub3305_1.svg gave hash 3426768357U not the expected 3688394300U 162: file testGithub3305_2.svg gave hash 193465986U not the expected 3172298658U 162: file testGithub3305_3.svg gave hash 3399005512U not the expected 30441258U 162: file testGithub3305_1.png gave hash 1516908793U not the expected 3303791649U 162: file testGithub3305_2.png gave hash 4238325905U not the expected 4003267433U 162: file testGithub3305_3.png gave hash 1266082498U not the expected 273338209U 162: file testGithub3305_4.png gave hash 2758251182U not the expected 3842605920U 162: file testGithub3305_4.svg gave hash 1096665289U not the expected 300865579U 162: file testGithub3305_5.png gave hash 284833991U not the expected 151279576U 162: file testGithub3305_5.svg gave hash 2864659968U not the expected 1335449325U 162: file testGithub3305_6.png gave hash 906926625U not the expected 613418460U 162: file testGithub3305_6.svg gave hash 2849474065U not the expected 4242832627U 162: file testGithub3305_7.png gave hash 3156471943U not the expected 2835747678U 162: file testGithub3305_7.svg gave hash 4251853036U not the expected 1080046861U 162: Done 162: ----------------- Test Github 3391 - maxFontSize interacting badly with DrawMolecules. 162: file testGithub3391_2.svg gave hash 1318798309U not the expected 1941002529U 162: file testGithub3391_3.svg gave hash 783539193U not the expected 2929587661U 162: file testGithub3391_4.svg gave hash 86190467U not the expected 3877564580U 162: Done 162: ----------------- Test Github 4156 - bad scale for radicals in grid 162: file testGithub4156_1.svg gave hash 19990580U not the expected 3897707793U 162: file testGithub4156_2.svg gave hash 2685997745U not the expected 2067399849U 162: Done 162: ----------------- Test JSON atomColourPalette 162: file test23_1.svg gave hash 724753536U not the expected 244577595U 162: Done 162: ----------------- Test draw aromatic OR queries 162: Done 162: ----------------- Test AND queries 162: Done 155/246 Test #162: moldraw2DTest1 ......................... Passed 8.94 sec test 163 Start 163: moldraw2DTestCatch 163: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DTestCatch 163: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D 163: Test timeout computed to be: 7200 163: Randomness seeded to: 216690937 163: file testAtomTags_1.svg gave hash 3542197767U not the expected 3187798125U 163: file testAtomTags_2.svg gave hash 1648758889U not the expected 822910240U 163: file testAtomTags_3.svg gave hash 410848479U not the expected 2244078420U 163: file contourMol_1.svg gave hash 1749387692U not the expected 3634867913U 163: file contourMol_2.svg gave hash 3371803390U not the expected 1815941817U 163: file contourMol_3.svg gave hash 3458913990U not the expected 2579392727U 163: file contourMol_4.svg gave hash 3208914131U not the expected 2914799663U 163: file contourMol_5.svg gave hash 2595550724U not the expected 3792684719U 163: file contourMol_6.svg gave hash 1450249302U not the expected 1743220181U 163: file contourMol_7.svg gave hash 4053301088U not the expected 2221193310U 163: file testFoundations_1.svg gave hash 2283802316U not the expected 2350247048U 163: file testFoundations_2.svg gave hash 2468031318U not the expected 15997352U 163: file testTest_1.svg gave hash 2468031318U not the expected 15997352U 163: file testKekulizationProblems_1.svg gave hash 3327452096U not the expected 2284161107U 163: file testAtomBondIndices_1.svg gave hash 616201599U not the expected 2702803018U 163: file testAtomBondIndices_2.svg gave hash 1572186777U not the expected 1564350363U 163: file testAtomBondIndices_3.svg gave hash 2607897548U not the expected 1346662812U 155: .............[05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 163: file testAtomBondIndices_4.svg gave hash 1781316380U not the expected 662361891U 163: file testAtomBondIndices_5.svg gave hash 793323137U not the expected 1502163147U 163: file testAtomBondIndices_6.svg gave hash 698046127U not the expected 1659568104U 163: file testGithub3226_1.svg gave hash 22593684U not the expected 831257877U 163: file testGithub3226_1.png gave hash 2812555500U not the expected 3165135374U 163: file testGithub3226_2.svg gave hash 4138091576U not the expected 3517325227U 163: file testGithub3226_2.png gave hash 1283329694U not the expected 643975155U 163: file testGithub3226_3.svg gave hash 3404095735U not the expected 3609721552U 163: file testGithub3226_3.png gave hash 2323908705U not the expected 3119571946U 163: file testPNGMetadata_1.png gave hash 2509107217U not the expected 997629701U 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 163: file testPNGMetadata_2.png gave hash 748024399U not the expected 1797853056U 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 163: file testGithub3369_1.svg gave hash 3375138088U not the expected 1227653771U 163: file testIncludeRadicals_1a.svg gave hash 1368422441U not the expected 1829641340U 163: file testLegendsAndDrawing-1.svg gave hash 1557849637U not the expected 3563802758U 163: file testGithub3577-1.svg gave hash 3105871660U not the expected 763116213U 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 163: [05:16:23] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:23] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-1.svg gave hash 4223601249U not the expected 2253418236U 163: [05:16:23] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:23] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 163: file testHandDrawn-1.png gave hash 1458570240U not the expected 3894611804U 155: [05:16:23] Molecule does not have explicit Hs. Consider calling AddHs() 163: [05:16:23] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:23] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-2.svg gave hash 3213069550U not the expected 794717511U 163: [05:16:23] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:23] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-2.png gave hash 1717036333U not the expected 1443443188U 163: [05:16:23] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:23] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-3.svg gave hash 2935473441U not the expected 3982694296U 163: [05:16:23] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:23] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-3.png gave hash 2780147607U not the expected 865629432U 163: [05:16:23] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:23] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-4.svg gave hash 1833763060U not the expected 2146113517U 163: [05:16:23] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:23] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-4.png gave hash 2253573871U not the expected 3919767093U 163: file testHandDrawn-5a.svg gave hash 3580963342U not the expected 1567781555U 163: [05:16:24] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:24] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-5b.svg gave hash 2293088095U not the expected 66354106U 163: [05:16:24] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 163: [05:16:24] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testHandDrawn-5.png gave hash 3016126506U not the expected 828378555U 163: file testBrackets-1a.svg gave hash 64586795U not the expected 4189399574U 163: file testBrackets-1b.svg gave hash 219987106U not the expected 3773894816U 163: file testBrackets-1c.svg gave hash 64586795U not the expected 4189399574U 163: file testBrackets-1d.svg gave hash 219987106U not the expected 3773894816U 163: file testBrackets-1e.svg gave hash 3788532828U not the expected 2492125470U 163: file testBrackets-2a.svg gave hash 574382548U not the expected 1050851904U 163: file testBrackets-2b.svg gave hash 1148554894U not the expected 776446765U 163: file testBrackets-2c.svg gave hash 574382548U not the expected 1050851904U 163: file testBrackets-2d.svg gave hash 1148554894U not the expected 776446765U 163: file testBrackets-3a.svg gave hash 55347162U not the expected 3096284602U 163: file testBrackets-4a.svg gave hash 4109127586U not the expected 3837821771U 163: file testBrackets-4b.svg gave hash 3897543317U not the expected 1477006167U 163: file testBrackets-5a.svg gave hash 1236934849U not the expected 1447240271U 163: file testBrackets-5768.svg gave hash 2223513506U not the expected 2559120196U 163: file testSGroupData-1a.svg gave hash 2340055151U not the expected 426096222U 163: file testSGroupData-1b.svg gave hash 2886132663U not the expected 1688385103U 163: file testSGroupData-3a.svg gave hash 713845791U not the expected 62481132U 163: file testSGroupData-2a.svg gave hash 1798361530U not the expected 195363059U 163: file testSGroupData-2b.svg gave hash 1739798573U not the expected 942041938U 163: file testSGroupData-3a.svg gave hash 713845791U not the expected 62481132U 163: file testPositionVariation-1.svg gave hash 1250593729U not the expected 1347003808U 163: file testPositionVariation-1b.svg gave hash 2900880626U not the expected 3269244452U 163: file testPositionVariation-2.svg gave hash 2404588724U not the expected 473948585U 163: file testPositionVariation-3.svg gave hash 1954108374U not the expected 4039188982U 163: file testPositionVariation-4.svg gave hash 1793821079U not the expected 3407574474U 163: file testNoAtomLabels-1.svg gave hash 574617410U not the expected 4255907058U 163: file testNoAtomLabels-2.svg gave hash 3194451719U not the expected 3643749531U 163: file testQueryBonds-1a.svg gave hash 4014427809U not the expected 1525751327U 163: file testQueryBonds-1b.svg gave hash 2936984779U not the expected 2239724223U 163: file testQueryBonds-1c.svg gave hash 3871378016U not the expected 2434786487U 163: file testQueryBonds-2.svg gave hash 2707675342U not the expected 3399320861U 163: file testLinkNodes-2-0.svg gave hash 4034645063U not the expected 145749789U 163: file testLinkNodes-2-30.svg gave hash 672481277U not the expected 3203923109U 163: file testLinkNodes-2-60.svg gave hash 705226084U not the expected 2004079267U 163: file testLinkNodes-2-90.svg gave hash 3571272174U not the expected 171994932U 163: file testLinkNodes-2-120.svg gave hash 230633195U not the expected 673333745U 163: file testLinkNodes-2-150.svg gave hash 1751250656U not the expected 51965551U 163: file testLinkNodes-2-180.svg gave hash 1099619505U not the expected 433020402U 163: file testMolAnnotations-1.svg gave hash 4186871544U not the expected 1638024035U 163: file testMolAnnotations-2a.svg gave hash 993933032U not the expected 3029896996U 163: file testMolAnnotations-2b.svg gave hash 764542382U not the expected 3110016833U 163: file testMolAnnotations-2c.svg gave hash 3637581889U not the expected 611992302U 163: file testMolAnnotations-3a.svg gave hash 2967880938U not the expected 55379064U 163: file testMolAnnotations-3b.svg gave hash 2827440022U not the expected 936144383U 163: file testMolAnnotations-3c.svg gave hash 3940820727U not the expected 3983292921U 163: file testMolAnnotations-3d.svg gave hash 2455786422U not the expected 748075045U 163: file testMolAnnotations-4a.svg gave hash 684780546U not the expected 3474490519U 163: file testLinkNodes-1-0.svg gave hash 1742740041U not the expected 3845035394U 163: file testLinkNodes-1-30.svg gave hash 290570218U not the expected 3207457801U 163: file testLinkNodes-1-60.svg gave hash 293757258U not the expected 2620138210U 163: file testLinkNodes-1-90.svg gave hash 2184207504U not the expected 1457485851U 163: file testLinkNodes-1-120.svg gave hash 1777381842U not the expected 4267267665U 163: file testLinkNodes-1-150.svg gave hash 3520382532U not the expected 574622776U 163: file testLinkNodes-1-180.svg gave hash 638488040U not the expected 2541146503U 163: file testGithub3744.svg gave hash 1280540500U not the expected 387800653U 163: file testAtomLists-1.svg gave hash 1504296447U not the expected 1887579391U 163: file testAtomLists-2.svg gave hash 3251029350U not the expected 555139782U 163: file testIsoDummyIso.svg gave hash 3319443622U not the expected 2405371137U 163: file testNoIsoDummyIso.svg gave hash 1461272805U not the expected 748558214U 163: file testIsoNoDummyIso.svg gave hash 2432588025U not the expected 3054263824U 163: file testNoIsoNoDummyIso.svg gave hash 247862132U not the expected 1185561148U 163: file testHydrogenBonds1.svg gave hash 2225826152U not the expected 2605974904U 163: [05:16:25] unrecognized bond typefile testHydrogenBonds2.svg gave hash 4149192934U not the expected 645414593U 163: file testGithub2976.svg gave hash 827785853U not the expected 4194649417U 163: file testReactionCoords.svg gave hash 3403716630U not the expected 798999015U 163: file testAnnotationColors.svg gave hash 2161803217U not the expected 3297011749U 163: file testGithub4238_1.svg gave hash 3856931975U not the expected 842841477U 163: file testGithub4238_1.png gave hash 1612259880U not the expected 2623427676U 163: file testGithub4323_1.svg gave hash 3737732114U not the expected 2536621192U 163: file testGithub4323_2.svg gave hash 2985792549U not the expected 2120846759U 163: file testGithub4323_3.svg gave hash 1806358430U not the expected 4156867630U 163: file testGithub4323_4.svg gave hash 3413065852U not the expected 3824125601U 163: file testGithub4323_1.png gave hash 106384585U not the expected 3075787867U 155: ...[05:16:25] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:25] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:25] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:25] Molecule does not have explicit Hs. Consider calling AddHs() 155: [05:16:25] Molecule does not have explicit Hs. Consider calling AddHs() 155: ... 155: ---------------------------------------------------------------------- 155: Ran 19 tests in 14.132s 155: 155: OK 155: Testing MolAlign Wrappers 156/246 Test #155: pyMolAlign ............................. Passed 14.62 sec test 164 Start 164: moldraw2DRxnTest1 164: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DRxnTest1 164: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D 164: Test timeout computed to be: 7200 164: ----------------- Test 1 164: file rxn_test1_1.png gave hash 4020643666U not the expected 801892091U 164: file rxn_test1_1.svg gave hash 2895800765U not the expected 4280849065U 164: file rxn_test1_2.png gave hash 1404595713U not the expected 507435337U 164: file rxn_test1_2.svg gave hash 2007816931U not the expected 2640646320U 164: file rxn_test1_3.png gave hash 482053907U not the expected 1590809137U 164: file rxn_test1_3.svg gave hash 2341270304U not the expected 2781928588U 164: file rxn_test1_4.png gave hash 2222627099U not the expected 1766700542U 164: file rxn_test1_4.svg gave hash 1951052784U not the expected 437863065U 164: file rxn_test1_5.png gave hash 1839474947U not the expected 2552100594U 164: file rxn_test1_5.svg gave hash 2952130468U not the expected 3590497359U 164: file rxn_test1_6.png gave hash 770525514U not the expected 3791582903U 164: file rxn_test1_6.svg gave hash 1245887687U not the expected 3289415410U 164: file rxn_test1_7.png gave hash 2288291866U not the expected 1461397406U 164: file rxn_test1_7.svg gave hash 3818263825U not the expected 1831465890U 164: Done 164: ----------------- Test 2: some examples that caused problems in testing 164: file rxn_test2_1.png gave hash 381540309U not the expected 3551633840U 164: file rxn_test2_1.svg gave hash 2863536167U not the expected 3702350010U 164: 3 [cH:1]1[cH:2][cH:3][c:4][cH:5][cH:6]1>>CC(C)[c:1]1[cH:2][cH:3][c:4][cH:5][cH:6]1 CN1CCC(CC1)N(C)S(=O)(=O)c2ccccc2 CC(C)c1ccc(cc1)S(=O)(=O)N(C)C2CCN(CC2)C 164: file rxn_test2_2_1.png gave hash 106320165U not the expected 1268122583U 164: file rxn_test2_2_1.svg gave hash 3853350160U not the expected 3044844617U 164: 3 [cH:1]1[cH:2][cH:3][c:4][cH:5][cH:6]1>>[cH:3]1[cH:2][c:1]([cH:6][cH:5][c:4]1)Cl Cc1cccc(c1C)N2CCN(CC2)CCCNC(=O)c3cc([nH]c3C)c4ccccc4 Cc1cccc(c1C)N2CCN(CC2)CCCNC(=O)c3cc([nH]c3C)c4ccc(cc4)Cl 164: file rxn_test2_2_2.png gave hash 1290392038U not the expected 82821108U 164: file rxn_test2_2_2.svg gave hash 72786277U not the expected 269990608U 164: 2 Cc1c(cc([nH]1)[c:1]2[cH:2][cH:3][cH:4][cH:5][cH:6]2)[C:7](=[O:8])[NH:9][CH2:10][CH2:11]>>CCc1nc(c(n1[c:1]2[cH:2][cH:3][cH:4][cH:5][cH:6]2)C)[C:7](=[O:8])[NH:9][CH2:10][CH2:11] Cc1c(cc([nH]1)c2ccccc2)C(=O)NCCN3CCN(C 164: 2 C3)c4cccc(c4Cl)Cl CCc1nc(c(n1c2ccccc2)C)C(=O)NCCN3CCN(CC3)c4cccc(c4Cl)Cl 164: 3 [c:1][C:2](=[O:3])[NH:4]CCC[CH2:5][N:6]([CH2:7])[CH2:8]>>[c:1][C:2](=[O:3])[NH:4]C[CH2:5][N:6]([CH2:7])[CH2:8] CCCn1c(c(cc1c2ccccc2)C(=O)NCCCCN3CCN(CC3)c4cccc(c4Cl)Cl)C CCCn1c(c(cc1c2ccccc2)C(=O)NCCN3CCN(CC3)c4cccc(c4Cl)Cl)C 164: file rxn_test2_2_3.png gave hash 203175959U not the expected 3828365604U 164: file rxn_test2_2_3.svg gave hash 1995182177U not the expected 2459428150U 164: 3 [CH3:1]c1c(cc(n1[CH3:2])C(C)(C)C)[C:3]>>[CH3:2]c1c(c(nc(n1)[CH3:1])[C:3])OC Cc1cccc(c1C)N2CCN(CC2)CCNC(=O)c3cc(n(c3C)C)C(C)(C)C Cc1cccc(c1C)N2CCN(CC2)CCNC(=O)c3c(c(nc(n3)C)C)OC 164: file rxn_test2_2_4.png gave hash 1096668109U not the expected 1230108677U 164: file rxn_test2_2_4.svg gave hash 573062586U not the expected 2528579930U 164: Done 164: ----------------- Test 3: test reactant highlighting 164: file rxn_test3_1.png gave hash 4112529299U not the expected 4189980366U 164: file rxn_test3_1.svg gave hash 3362884215U not the expected 2912956802U 164: Done 164: ----------------- Test 4: some examples from SMARTS in testing 164: draw! 164: file rxn_test4_1.png gave hash 1800494905U not the expected 2745201873U 164: file rxn_test4_1.svg gave hash 2517063300U not the expected 1758099294U 164: done 164: file rxn_test4_2.png gave hash 168316524U not the expected 3094925886U 164: file rxn_test4_2.svg gave hash 477046251U not the expected 3493436271U 164: Done 157/246 Test #164: moldraw2DRxnTest1 ...................... Passed 0.50 sec test 165 Start 165: pyMolDraw2D 165: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Wrap/testMolDraw2D.py" 165: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap 165: Test timeout computed to be: 7200 163: file testGithub4323_3.png gave hash 337842488U not the expected 381907253U 163: file testGithub4508_1.svg gave hash 711057613U not the expected 2047652713U 163: [05:16:26] FIELDDISP info not found for DAT SGroup which isn't associated with an atom. SGroup will not be rendered. 163: file testGithub4508_1b.svg gave hash 3491849265U not the expected 2681019776U 163: file testGithub4508_2.svg gave hash 1811468860U not the expected 1382076550U 163: file testGithub4508_2b.svg gave hash 964213742U not the expected 4005636724U 163: file testGithub4538.svg gave hash 2600997525U not the expected 2550818801U 163: file testDarkMode.1.svg gave hash 1154231353U not the expected 4157562958U 163: file testMonochrome.1.svg gave hash 4022443314U not the expected 482290994U 163: file testMonochrome.2.svg gave hash 3148679451U not the expected 2128285153U 163: file testAvalon.1.svg gave hash 2803567763U not the expected 477303888U 163: file testCDK.1.svg gave hash 882351452U not the expected 1764612361U 163: file testGithub4519_1.svg gave hash 2664633857U not the expected 736612670U 163: file testGithub4519_2.svg gave hash 1584629953U not the expected 171503813U 163: file testGithub4519_3.svg gave hash 848820494U not the expected 3396792960U 163: file testGithub4519_4.svg gave hash 1522152095U not the expected 3875957215U 163: file testBaseFontSize.1a.svg gave hash 3665607409U not the expected 1295117205U 163: file testBaseFontSize.1b.svg gave hash 1542403068U not the expected 3595811515U 163: file testBaseFontSize.2a.svg gave hash 1704350166U not the expected 2958687877U 165: ...[05:16:26] Font file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Amadeus.ttf not found. 165: [05:16:26] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 163: file testBaseFontSize.2b.svg gave hash 3344593609U not the expected 1786972332U 163: file testFlexiCanvas.1a.svg gave hash 2376791495U not the expected 2633733362U 163: file testFlexiCanvas.1b.svg gave hash 2472371250U not the expected 1541095928U 163: file testFlexiCanvas.1c.svg gave hash 2797251846U not the expected 3204351481U 163: file testFlexiCanvas.1d.svg gave hash 3190671363U not the expected 1753089731U 163: file testFlexiCanvas.2.svg gave hash 269007759U not the expected 665664909U 163: file testFlexiCanvas.2a.png gave hash 816512823U not the expected 2609920321U 163: file testFlexiCanvas.2b.png gave hash 2120145716U not the expected 3615599154U 163: file testSemiFlexiCanvas.1a.svg gave hash 2472371250U not the expected 1541095928U 163: file testSemiFlexiCanvas.1b.svg gave hash 2474894189U not the expected 3020732451U 165: ..........[05:16:26] 165: 165: **** 165: Pre-condition Violation 165: molecule must not be None 165: Violation occurred on line 432 in file ./Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp 165: Failed Expression: m 165: ---------- 165: Stacktrace: 165: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 165: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 165: 2# RDKit::prepMolForDrawing(RDKit::ROMol const*, bool, bool, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/Draw/rdMolDraw2D.so 165: 3# boost::python::objects::caller_py_function_impl, boost::mpl::vector7 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/Draw/rdMolDraw2D.so 165: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 165: 5# 0x0000FFFFB5411620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 165: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 165: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 165: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 165: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 165: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 165: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 165: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 165: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 165: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 165: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 165: 16# 0x0000FFFFB4C84200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 165: 17# 0x0000FFFFB4C8419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 165: 18# 0x0000FFFFB4C84138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 165: 19# 0x0000FFFFB4C840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 165: 20# 0x0000FFFFB4C84064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 165: 21# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 165: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 165: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 165: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 165: 25# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 165: 26# 0x0000FFFFB540E23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 165: 27# _PyObject_MakeTpCall in /usr/bin/python3 165: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 165: 29# 0x000000000054AD18 in /usr/bin/python3 165: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 165: 31# 0x000000000063D08C in /usr/bin/python3 165: 32# 0x00000000005BE294 in /usr/bin/python3 165: 33# _PyObject_MakeTpCall in /usr/bin/python3 165: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 165: 35# 0x000000000054AD18 in /usr/bin/python3 165: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 165: 37# 0x000000000063D08C in /usr/bin/python3 165: 38# 0x00000000005BE294 in /usr/bin/python3 165: 39# _PyObject_MakeTpCall in /usr/bin/python3 165: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 165: 41# 0x000000000054AD18 in /usr/bin/python3 165: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 165: 43# 0x000000000063D08C in /usr/bin/python3 165: 44# 0x00000000005BE294 in /usr/bin/python3 165: 45# _PyObject_MakeTpCall in /usr/bin/python3 165: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 165: 47# 0x0000000000516BB0 in /usr/bin/python3 165: 48# _PyObject_MakeTpCall in /usr/bin/python3 165: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 165: 50# PyEval_EvalCode in /usr/bin/python3 165: 51# 0x000000000065EE80 in /usr/bin/python3 165: 52# 0x000000000065A730 in /usr/bin/python3 165: 53# 0x000000000067EBA0 in /usr/bin/python3 165: 54# 0x000000000067E43C in /usr/bin/python3 165: 55# 0x000000000067E1C8 in /usr/bin/python3 165: 56# Py_RunMain in /usr/bin/python3 165: 57# Py_BytesMain in /usr/bin/python3 165: 58# 0x0000FFFFB70E255C in /usr/lib/aarch64-linux-gnu/libc.so.6 165: 59# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 165: 60# _start in /usr/bin/python3 165: ---------- 165: **** 165: 163: file testFlexiCanvas.3.svg gave hash 1836444545U not the expected 3544316588U 163: file testFlexiCanvas.4a.svg gave hash 2890365484U not the expected 1486952473U 163: file testFlexiCanvas.4b.svg gave hash 1548512529U not the expected 1957607740U 163: file testFlexiCanvas.4c.svg gave hash 3188013578U not the expected 3955371857U 163: file testFlexiCanvas.4d.svg gave hash 752620351U not the expected 1137945621U 163: file testFlexiCanvas.5a.svg gave hash 2640129938U not the expected 3968863584U 163: file testFlexiCanvas.5b.svg gave hash 2785796829U not the expected 649567318U 163: file testFlexiCanvas.5c.svg gave hash 1946333790U not the expected 1826396133U 163: file testFlexiCanvas.5d.svg gave hash 1052911796U not the expected 1730603480U 163: file testFlexiCanvas.6a.svg gave hash 2747664988U not the expected 3085867303U 163: file testFlexiCanvas.6b.svg gave hash 106899373U not the expected 2819164642U 163: file testFlexiCanvas.6c.svg gave hash 2747664988U not the expected 3085867303U 163: file testFlexiCanvas.6d.svg gave hash 2747664988U not the expected 3085867303U 163: file testFlexiCanvas.7a.svg gave hash 3558005743U not the expected 514767495U 163: file testFlexiCanvas.7b.svg gave hash 4108886415U not the expected 4275125955U 163: file testFlexiCanvas.7c.svg gave hash 3558005743U not the expected 514767495U 163: file testFlexiCanvas.7d.svg gave hash 3558005743U not the expected 514767495U 163: file testGithub4764.sz1.svg gave hash 3960519436U not the expected 3611125861U 163: file testGithub4764.sz2.svg gave hash 1248344525U not the expected 1936114454U 163: file testGithub4764.sz3.svg gave hash 216601514U not the expected 2712214121U 163: file testGithub4764.sz1.png gave hash 60244413U not the expected 2179222277U 163: file testGithub4764.sz2.png gave hash 811878551U not the expected 444262090U 163: file testGithub4764.sz3.png gave hash 3943283520U not the expected 3567162200U 163: file testDrawArc1.svg gave hash 2570257638U not the expected 3279637525U 163: file testMetalWedges.svg gave hash 1866142125U not the expected 2896721486U 163: file testVariableLegend_1.svg gave hash 1208675629U not the expected 1817838365U 163: file testVariableLegend_2.svg gave hash 799897710U not the expected 1038247753U 163: file testVariableLegend_3.svg gave hash 2599269417U not the expected 2073034956U 163: file testGithub_5061.svg gave hash 1693817644U not the expected 2050932431U 163: file testGithub_5269_1.svg gave hash 1215253662U not the expected 4160868253U 163: file testGithub_5269_2.svg gave hash 3106933409U not the expected 488926221U 165: ........................ 165: ---------------------------------------------------------------------- 165: Ran 37 tests in 0.269s 165: 165: OK 165: json lasso 163: file test_classes_wavy_bonds.svg gave hash 717756861U not the expected 1694809514U 163: file github5383_1.svg gave hash 3371803390U not the expected 1815941817U 163: file github5383_2.svg gave hash 1193694137U not the expected 0U 163: file github5383_1.png gave hash 2596689108U not the expected 2893520928U 163: file github5156_1.svg gave hash 369772438U not the expected 2145907703U 163: file github5156_2.svg gave hash 3891486909U not the expected 4184795863U 163: file acs1996_1.svg gave hash 216498414U not the expected 1111630317U 163: file acs1996_1.png gave hash 3846637818U not the expected 2329725800U 163: file acs1996_2.svg gave hash 3690302210U not the expected 908745273U 163: file acs1996_2.png gave hash 636902962U not the expected 2996350718U 163: file acs1996_3.svg gave hash 2134212631U not the expected 879041204U 163: file acs1996_4.svg gave hash 1360276338U not the expected 1550424006U 163: file acs1996_5.svg gave hash 2027066644U not the expected 3624853279U 163: file acs1996_6.svg gave hash 2198014585U not the expected 3810124161U 163: file acs1996_7.svg gave hash 141629659U not the expected 1113821459U 163: file acs1996_8.svg gave hash 2798315780U not the expected 4110469272U 163: file acs1996_9.svg gave hash 638739745U not the expected 231896677U 163: file acs1996_10.svg gave hash 1008047306U not the expected 2229333301U 163: file acs1996_11.svg gave hash 2107122283U not the expected 4107969968U 163: [05:16:26] ACS drawing mode works best with a flexiCanvas i.e. a drawer created with width and height of -1. The scale will be fixed, and that may not look great with a pre-determined size. 163: file acs1996_12.svg gave hash 1695632460U not the expected 2930884583U 163: file test_unspec_stereo.svg gave hash 738766093U not the expected 3923423666U 163: file light_blue_h_no_label_1.svg gave hash 4062235881U not the expected 1615074554U 163: file bond_highlights_1.svg gave hash 658102882U not the expected 3461339568U 163: file bond_highlights_2.svg gave hash 3764645182U not the expected 4196744632U 163: file bond_highlights_3.svg gave hash 3867013292U not the expected 1492806612U 163: file bond_highlights_4.svg gave hash 3867013292U not the expected 1492806612U 163: file bond_highlights_5.svg gave hash 3468095694U not the expected 1018090699U 163: file bond_highlights_6.svg gave hash 2798034336U not the expected 2808634572U 163: file bond_highlights_7.svg gave hash 2718345351U not the expected 2160801877U 163: file bond_highlights_8.svg gave hash 583556865U not the expected 3119784980U 163: file bond_highlights_9.svg gave hash 3952673208U not the expected 3999278931U 163: file testGithub5486_1.svg gave hash 1690505493U not the expected 3146085634U 163: file testGithub5511_1.svg gave hash 3804872941U not the expected 3975118836U 163: file testGithub5511_2.svg gave hash 1462033913U not the expected 1730094503U 163: file test_github_5534.svg gave hash 2321188208U not the expected 4139208597U 163: file test_github5704_1.svg gave hash 2750231117U not the expected 1676917819U 163: file test_github5704_2.svg gave hash 2842843814U not the expected 2959183882U 163: file test_github5704_3.svg gave hash 3877554301U not the expected 1303839406U 163: file test_github5704_4.svg gave hash 1994163028U not the expected 578468407U 163: file test_github5767.svg gave hash 3276045309U not the expected 3943519724U 163: file test_github5947.svg gave hash 2759717842U not the expected 3122633523U 163: file test_github5943.svg gave hash 2101435859U not the expected 1113511714U 158/246 Test #165: pyMolDraw2D ............................ Passed 0.86 sec test 166 Start 166: testFMCS 166: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/testFMCS 166: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS 166: Test timeout computed to be: 7200 163: file test_github5949.svg gave hash 3224019254U not the expected 420848566U 163: file test_github5974.svg gave hash 1343954295U not the expected 1522014196U 163: file test_github5963.svg gave hash 3298068568U not the expected 941197725U 163: file test_github6025.svg gave hash 4133517553U not the expected 2316385019U 163: file test_github6027_1.svg gave hash 3135827679U not the expected 1504848694U 163: file test_github6027_2.svg gave hash 3945179782U not the expected 765638922U 163: file test_github6041b.svg gave hash 491337038U not the expected 444537337U 163: file test_complex_query_atoms_1.svg gave hash 1858963124U not the expected 1058348348U 163: file test_complex_query_atoms_2.svg gave hash 1035480271U not the expected 3820627663U 163: file test_complex_query_atoms_3.svg gave hash 1686043631U not the expected 2574610745U 163: file test_complex_query_atoms_4.svg gave hash 1686043631U not the expected 2574610745U 163: file test_complex_query_atoms_5.svg gave hash 2203803203U not the expected 2239402605U 163: file test_complex_query_atoms_6.svg gave hash 3698041037U not the expected 2784917732U 163: file test_complex_query_atoms_7.svg gave hash 1245832599U not the expected 4016570948U 163: file test_complex_query_atoms_8.svg gave hash 1294989648U not the expected 1215989604U 163: file test_complex_query_atoms_9.svg gave hash 1115198970U not the expected 774489308U 163: file test_complex_query_atoms_10.svg gave hash 2517251618U not the expected 1888858967U 163: file test_complex_query_atoms_11.svg gave hash 3242318807U not the expected 2202417832U 163: file test_complex_query_atoms_12.svg gave hash 1172019267U not the expected 4094464645U 163: file test_complex_query_atoms_13.svg gave hash 1243902839U not the expected 2082462146U 163: file test_complex_query_atoms_14.svg gave hash 144421840U not the expected 3306293765U 163: file test_complex_query_atoms_15.svg gave hash 350162044U not the expected 422354297U 163: file test_complex_query_atoms_16.svg gave hash 2056433870U not the expected 1559600050U 163: file test_github6112.svg gave hash 786537593U not the expected 3278777629U 163: file test_github6160_1.svg gave hash 2373441701U not the expected 1248002094U 163: file test_github6160_2.svg gave hash 780313662U not the expected 3845316354U 163: file test_github6160_3.svg gave hash 2495826902U not the expected 332436229U 163: file test_getMolSize.svg gave hash 738629656U not the expected 894431558U 163: file test_github6200_1.svg gave hash 3652083807U not the expected 1975293465U 163: file test_github6200_2.svg gave hash 1251662961U not the expected 2658818798U 163: file test_queryColour_1.svg gave hash 612698405U not the expected 778322651U 163: file test_queryColour_2.svg gave hash 4016400312U not the expected 45913095U 163: file github6336_1.png gave hash 656214421U not the expected 2958833204U 163: file github6336_1.svg gave hash 1390783959U not the expected 612606818U 163: file github6416.svg gave hash 204958662U not the expected 3814405016U 163: file test_github6397_1.svg gave hash 641826916U not the expected 4203615821U 163: file test_github6397_2.svg gave hash 3671116844U not the expected 2405824082U 163: file test_github6397_3.svg gave hash 4272638606U not the expected 759740391U 163: file test_github6397_4.svg gave hash 1388380802U not the expected 3123896712U 163: file test_github6397_5.svg gave hash 3466872743U not the expected 148587580U 163: file test_github6400_1.svg gave hash 3669796685U not the expected 2792561051U 163: file github6504_1.svg gave hash 3899211832U not the expected 3649936662U 163: file github6504_2.svg gave hash 3024468659U not the expected 106020287U 163: file github6569_1.svg gave hash 1904338201U not the expected 1698514747U 163: file github6569_2.svg gave hash 3753962909U not the expected 3269796969U 163: file lasso_highlights_1.svg gave hash 2758820347U not the expected 3709434534U 163: file lasso_highlights_2.svg gave hash 3793930795U not the expected 757121560U 163: file lasso_highlights_3.svg gave hash 909338570U not the expected 556406365U 163: file lasso_highlights_4.svg gave hash 1169229929U not the expected 4148844874U 163: file lasso_highlights_5.svg gave hash 595568267U not the expected 3920196793U 163: file lasso_highlights_6.svg gave hash 4057458673U not the expected 2113147733U 163: file lasso_highlights_7.svg gave hash 1759335409U not the expected 514868036U 163: file lasso_highlights_8.svg gave hash 2072576322U not the expected 3231367552U 163: file testGithub6685_1.svg gave hash 2360028336U not the expected 1012747673U 163: file testGithub6685_2.svg gave hash 1967489890U not the expected 4003431099U 163: file testGithub6685_3.svg gave hash 2315324286U not the expected 3019254647U 163: file testGithub6685_4.svg gave hash 1348301909U not the expected 1239628830U 163: file bad_lasso_1.svg gave hash 2208691179U not the expected 726527516U 163: file AtropCanon1.svg gave hash 1130558009U not the expected 1371378369U 163: file AtropManyChiralsEnhanced.svg gave hash 2779455770U not the expected 2256768013U 163: file testGithub6968.svg gave hash 2416693956U not the expected 577496246U 163: file testGithub7036_2.svg gave hash 2093741698U not the expected 2411796331U 163: file testGithub7036_1.svg gave hash 1700645568U not the expected 303621762U 163: file testWedgeNonSingleBonds-1.svg gave hash 1476167396U not the expected 2116685919U 163: file testWedgeNonSingleBonds-2.svg gave hash 465473374U not the expected 1174395532U 163: file testWedgeNonSingleBonds-3.svg gave hash 2761716211U not the expected 2542970771U 163: file testWedgeNonSingleBonds-4.svg gave hash 1744898749U not the expected 700876833U 163: file testWedgeNonSingleBonds-5.svg gave hash 725983439U not the expected 2012191155U 163: file testWedgeNonSingleBonds-6.svg gave hash 478779300U not the expected 2517061935U 163: file testWedgeNonSingleBonds-7.svg gave hash 3160204290U not the expected 157069219U 163: file testWedgeNonSingleBonds-8.svg gave hash 1462975976U not the expected 3431784338U 163: file testWedgingShouldBeOnSingleBond.svg gave hash 354676681U not the expected 1002741488U 163: file testDuplicateEnhancedStereoLabelsAddAnnotationFalse.svg gave hash 596604646U not the expected 2980189527U 163: file testDuplicateEnhancedStereoLabelsAddAnnotationTrue.svg gave hash 596604646U not the expected 1462263453U 163: file testComplexQueryAtomMap.svg gave hash 1780085415U not the expected 722421835U 163: file testHighlightHeteroAtoms_1.svg gave hash 1075019271U not the expected 1769258632U 163: file testHighlightHeteroAtoms_2.svg gave hash 1842539731U not the expected 893937335U 163: file testGithub_7739_1.svg gave hash 2522396274U not the expected 2615562225U 163: file testGithub_7739_2.svg gave hash 1109975419U not the expected 2225049332U 163: file testGithub_7739_3.svg gave hash 1557300042U not the expected 1037942338U 163: file testGithub_7739_4.svg gave hash 3108591679U not the expected 3549083171U 163: file testGithub_7739_5.svg gave hash 3748355106U not the expected 1114216032U 163: file testAtomAbbreviationsClash.svg gave hash 222225321U not the expected 1847939197U 163: file testBlackAtomsUnderHighlight.svg gave hash 1437801379U not the expected 3916069581U 163: file testSmallReactionCanvas.svg gave hash 1550481432U not the expected 2238356155U 163: file testReactionProductSmoothCorners.svg gave hash 2404050427U not the expected 882352670U 163: file testOptionalAtomListBrackets_1.svg gave hash 3829750483U not the expected 4239908626U 163: file testOptionalAtomListBrackets_2.svg gave hash 562987240U not the expected 3881772214U 163: file testOptionalAtomListBrackets_3.svg gave hash 3781855073U not the expected 2945415850U 163: file testReactionPanels.svg gave hash 2401329499U not the expected 1616500155U 163: file testComponentPadding_1.svg gave hash 86889591U not the expected 2488754565U 163: file testComponentPadding_2.svg gave hash 3183164058U not the expected 2544322406U 163: file testAtomAndBondLabels_1.svg gave hash 3854792861U not the expected 288825710U 163: file testAtomAndBondLabels_2.svg gave hash 4131152872U not the expected 3501435082U 163: file testAtomAndBondLabels_3.svg gave hash 934726898U not the expected 3056536314U 163: file testAtomAndBondLabels_4.svg gave hash 1457363143U not the expected 229616498U 163: file testStandardColoursHighlightedAtoms_1.svg gave hash 4021373646U not the expected 4265528904U 163: file testStandardColoursHighlightedAtoms_2.svg gave hash 2006999042U not the expected 2285000572U 163: file testArrowheads.svg gave hash 177824424U not the expected 3318006834U 163: file testOffsetHighlightedMols.svg gave hash 1374346153U not the expected 3147614756U 163: =============================================================================== 163: All tests passed (6874 assertions in 120 test cases) 163: 159/246 Test #163: moldraw2DTestCatch ..................... Passed 4.60 sec test 167 Start 167: pyFMCS 167: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Wrap/testFMCS.py" 167: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap 167: Test timeout computed to be: 7200 166: MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds 166: Time elapsed 0.000 seconds 166: 166: test32() 166: MCS: [#6]1:[#6]:[#6]:[#6](:[#6]:[#6]:1)-[#6]=[#6]-[#6](-[#7]-[#6]1:[#6]:[#6](-[#16](-[#7]2-[#6]-[#6]-[#8]-[#6]-[#6]-2)(=[#8])=[#8]):[#6]:[#6]:[#6]:1-[#7](-[#6]-[#6])-[#6]-[#6])=[#8] 31 atoms, 33 bonds 166: Time elapsed 0.064 seconds 166: 166: test190() 166: MCS: [#6]1:[#6]:[#6]2:[#8]:[#6](:[#7]:[#6]:2:[#6]:[#6]:1)-[#6]1:[#6]:[#6](-[#7]-[#6](=[#8])-[#6]):[#6]:[#6]:[#6]:1 19 atoms, 21 bonds 166: Time elapsed 0.009 seconds 166: 166: test3() 166: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6]-[#6](=[#8])-[#7]-[#6]-[#6]-[#6]-[#6] 14 atoms, 14 bonds 166: Time elapsed 0.015 seconds 166: 166: testSimpleFast() 166: MCS: [#6]-[#8]-[#6]-[#6]1:[#6]:[#7]:[#6]:[#6](:[#6]:1):[#7]:[#6]1:[#6]:[#6]:[#6]:[#6](:[#6]:1)-[#8]-[#6]1:[#6]:[#6]:[#6](:[#6]:[#6]:1)-[#17] 24 atoms, 26 bonds 166: Time elapsed 0.105 seconds 166: 166: testSimple() 166: MCS: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 166: Time elapsed 0.098 seconds 166: MCS MatchFusedRings: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 166: Time elapsed 0.150 seconds 166: MCS MatchFusedRingsStrict: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 166: Time elapsed 0.179 seconds 166: 166: testSegFault() 166: MCS: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds 166: Time elapsed 0.021 seconds 166: MCS MatchFusedRings: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds 166: Time elapsed 0.014 seconds 166: MCS MatchFusedRingsStrict: [#6;r6,!R1]1:&@[#6;r6,!R1]:&@[#6;r6,!R1]:&@[#6;r6,!R1]:&@[#6;r6,!R1]:&@[#6;r6,!R1]:&@1 6 atoms, 6 bonds 166: Time elapsed 0.022 seconds 166: 166: testThreshold() 166: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 166: Time elapsed 0.000 seconds 166: 166: testRing1() 166: MCS: [#6]-&!@[#8]-&!@[#6]-&!@[#6]1:&@[#6]:&@[#7]:&@[#6]:&@[#6]2:&@[#6]:&@1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#7]:&@2 16 atoms, 17 bonds 166: Time elapsed 0.481 seconds 166: MCS MatchFusedRings: [#6]-&!@[#8]-&!@[#6]-&!@[#6]1:&@[#6]:&@[#7]:&@[#6]:&@[#6]2:&@[#6]:&@1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#7]:&@2 16 atoms, 17 bonds 166: Time elapsed 0.472 seconds 166: MCS MatchFusedRingsStrict: [#6;r6,!R1]1:&@[#6;r6,!R1]:&@[#7;r6,!R1]:&@[#6;r6,!R1](:&@[#6]:&@[#6]:&@1)-&!@[#6](=&!@[#8])-&!@[#8]-&!@[#6](-&!@[#6])-&!@[#6] 12 atoms, 12 bonds 166: Time elapsed 0.539 seconds 166: 166: testAtomCompareIsotopes() 166: MCS: [0*]-[0*]-[13*] 3 atoms, 2 bonds 166: Time elapsed 0.000 seconds 166: 166: testAtomCompareAnyAtom() 166: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds 166: Time elapsed 0.000 seconds 166: 166: testAtomCompareAnyAtom() 166: MCS: [#6]1-,:[#6]-,:[#6]-,:[#6]-,:[#6]-,:[#6]-,:1=,-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds 166: Time elapsed 0.000 seconds 166: 166: testAtomCompareAnyAtom() 166: MCS: [#1]-[#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#8] 8 atoms, 8 bonds 166: Time elapsed 0.000 seconds 166: 166: testAtomCompareAnyAtom() 166: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#8] 7 atoms, 7 bonds 166: Time elapsed 0.000 seconds 166: 166: testJnk1LigandsDistance() 166: MCS: [#6]-[#6]-[#8]-[#6]1:[#6](:[#6](:[#6]:[#6](:[#7]:1)-[#7]-[#6](=[#8])-[#6]-[#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1)-[#7])-[#6]#[#7] CCOc1nc(NC(=O)Cc2ccccc2)cc(N)c1C#N 22 atoms, 23 bonds 166: Time elapsed 0.013 seconds 166: MCS: [#6]-[#6]-[#8]-[#6]1:[#6](:[#6](:[#6]:[#6](:[#7]:1)-[#7]-[#6](=[#8])-[#6]-[#6]1:[#6]:[#6]:[#6]:[#6](:[#6]:1)-[#6,#8])-[#7])-[#6]#[#7] *c1cccc(CC(=O)Nc2cc(N)c(C#N)c(OCC)n2)c1 23 atoms, 24 bonds 166: Time elapsed 0.005 seconds 166: 166: test18() 166: Query +MAP [CH3:0][c:1]1[n:2][c:3]([CH2:4][N:5]([CH:6]([CH3:7])[c:8]2[n:9][cH:10][cH:11][cH:12][cH:13]2)[CH2:14][CH2:15][CH2:16][CH2:17][NH2:18])[cH:19][cH:20][cH:21]1 166: MCS: [#6](:[#7]:[#6]-[#6]-[#7](-[#6](-[#6])-[#6]1:[#7]:[#6]:[#6]:[#6]:[#6]:1)-[#6]-[#6]-[#6]-[#6]-[#7]):[#6]:[#6]:[#6] 21 atoms, 21 bonds 166: Time elapsed 0.008 seconds 166: 166: test504() 166: Query +MAP [CH2:0]([CH2:1][CH2:2][NH:3][C:4]([CH:5]1[CH2:6][CH:7]1[c:8]1[c:9][c:10]([Cl:11])[c:12]([Cl:13])[cH:14][c:15]1)=[O:16])[CH2:17][CH2:18][N:19]1[CH2:20][CH2:21][CH:22]([NH:23][C:24]([NH:25][c:26]2[cH:27][cH:28][c:29]([Cl:30])[cH:31][cH:32]2)=[O:33])[CH2:34]1 166: MCS: [#6](-[#6]-[#6]-[#7]-[#6](-[#6]1-[#6]-[#6]-1-[#6]1:[#6]:[#6](-[#17]):[#6](:[#6]:[#6]:1)-[#17])=[#8])-[#6]-[#6]-[#7](-[#6]-[#6]-[#6]-[#7]-[#6](-[#7]-[#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1)=[#8])-[#6] 34 atoms, 36 bonds 166: Time elapsed 0.093 seconds 166: MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds 166: Time elapsed 0.001 seconds 166: MCS: [#6]1-[#6]-[#7]-[#6](-[#6]-[#7]-1-[#6]1:[#6](:[#6]:[#6]2:[#6](:[#6](:[#6]:[#7](-[#6]3-[#6]-[#6]-3):[#6]:2:[#6]:1)-[#6](=[#8])-[#8])=[#8])-[#9])-[#6] 25 atoms, 28 bonds 166: Time elapsed 0.029 seconds 166: Query Cc1c(F)c(N2CCNC(C)C2)cc2c1c(=O)c(C(=O)O)cn2C1CC1 26(26) atoms, 29(28) bonds 166: 1 Seeds:1 MCS 25 atoms, 28 bonds for 0.0010 seconds. bond[0]=6 166: STATISTICS: 166: Total Growing Steps = 1, MCS found on 1 step, for 0.0010 seconds 166: Initial Seeds = 1, Mismatched 0 166: Inspected Seeds = 2 166: Rejected by BestSize = 0 166: IndividualBondExcluded = 0 166: MatchCheck Seeds = 2 166: MatchCalls = 2 166: MatchFound = 1 166: fastMatchCalls = 1 166: fastMatchFound = 0 166: slowMatchCalls = 2 166: slowMatchFound = 1 166: DupCacheFound = 0 0 matched, 0 mismatched 166: HashCache size = 1 keys 166: HashCache size = 1 entries 166: FindHashInCache = 2 166: HashFoundInCache= 0 166: ExactMatchCalls = 0 166: ExactMatchFound = 0 166: Time elapsed 0.001 seconds 166: query=OCCl SubstructMatch(useChirality=false) res =1 size=3 166: query=OCCl SubstructMatch(useChirality=true ) res =1 size=3 166: test target = O[C@H](F)CCl query = C(F)C useChirality = 0 166: res sub = 1 size=3 166: MCS: [#6](-[#9])-[#6] 3 atoms, 2 bonds 166: test target = O[C@H](F)CCl query = C(F)C useChirality = 1 166: res sub = 1 size=3 166: MCS: [#6](-[#9])-[#6] 3 atoms, 2 bonds 166: test target = CC[C@H](F)Cl query = CCC useChirality = 0 166: res sub = 1 size=3 166: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 166: test target = CC[C@H](F)Cl query = CCC useChirality = 1 166: res sub = 1 size=3 166: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 166: test target = CCC(F)Cl query = CC useChirality = 0 166: res sub = 1 size=2 166: MCS: [#6]-[#6] 2 atoms, 1 bonds 166: test target = CCC(F)Cl query = CC useChirality = 1 166: res sub = 1 size=2 166: MCS: [#6]-[#6] 2 atoms, 1 bonds 166: test target = C[C@H](F)CCl query = C[C@H](F)C useChirality = 0 166: res sub = 1 size=4 166: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = C[C@H](F)CCl query = C[C@H](F)C useChirality = 1 166: res sub = 1 size=4 166: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = C[C@H](F)CCl query = C[C@@H](F)C useChirality = 0 166: res sub = 1 size=4 166: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = C[C@H](F)CCl query = C[C@@H](F)C useChirality = 1 166: res sub = 1 size=4 166: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = O[C@H](F)CCl query = CC(F)C useChirality = 0 166: res sub = 0 size=0 166: MCS: [#6]-[#6]-[#9] 3 atoms, 2 bonds 166: test target = O[C@H](F)CCl query = CC(F)C useChirality = 1 166: res sub = 0 size=0 166: MCS: [#6]-[#6]-[#9] 3 atoms, 2 bonds 166: test target = O[C@H](F)CCl query = OC(F)C useChirality = 0 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = O[C@H](F)CCl query = OC(F)C useChirality = 1 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = O[C@H](F)CCl query = O[C@H](F)C useChirality = 0 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = O[C@H](F)CCl query = O[C@H](F)C useChirality = 1 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = O[C@H](F)CCl query = O[C@@H](F)C useChirality = 0 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = O[C@H](F)CCl query = O[C@@H](F)C useChirality = 1 166: res sub = 0 size=0 166: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 166: test target = OC(F)CCl query = OC(F)C useChirality = 0 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = OC(F)CCl query = OC(F)C useChirality = 1 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = OC(F)CCl query = O[C@H](F)C useChirality = 0 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = OC(F)CCl query = O[C@H](F)C useChirality = 1 166: res sub = 0 size=0 166: MCS: [#9] 1 atoms, 0 bonds 166: test target = OC(F)CCl query = O[C@@H](F)C useChirality = 0 166: res sub = 1 size=4 166: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 166: test target = OC(F)CCl query = O[C@@H](F)C useChirality = 1 166: res sub = 0 size=0 166: MCS: [#9] 1 atoms, 0 bonds 166: test target = O[C@H](F)CCl query = O[C@H]C useChirality = 0 166: res sub = 1 size=3 166: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 166: test target = O[C@H](F)CCl query = O[C@H]C useChirality = 1 166: res sub = 1 size=3 166: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 166: test target = O[C@H](F)CCl query = O[C@@H]C useChirality = 0 166: res sub = 1 size=3 166: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 166: test target = O[C@H](F)CCl query = O[C@@H]C useChirality = 1 166: res sub = 1 size=3 166: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 166: 166: 0. <<<<<<<<< actual MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds >>>>>>> 166: test target = CC[C@H](F)Cl query = CC[C@H] useChirality = 0 166: res sub = 1 size=3 166: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 166: test target = CC[C@H](F)Cl query = CC[C@H] useChirality = 1 166: res sub = 1 size=3 166: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 166: done 166: [05:16:30] The provided InitialSeed is not an MCS and will be ignored 153: --------------------------------- 153: test O3A multithreading bug 153: 153: --------------------------------- 153: testCrippenO3A multithreading 153: 153: generating reference data 167: ........................................[05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: [05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: [05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: .[05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: [05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: [05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: .[05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: [05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: [05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: .[05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: [05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: [05:16:31] The provided InitialSeed is not an MCS and will be ignored 167: ................. 167: ---------------------------------------------------------------------- 167: Ran 60 tests in 3.427s 167: 167: OK 153: processing 153: launch :0 153: launch :1 153: launch :2 153: launch :3 160/246 Test #167: pyFMCS ................................. Passed 3.84 sec test 168 Start 168: FMCStest 168: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/FMCStest 168: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test 168: Test timeout computed to be: 7200 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_15113.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_16613.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_30745.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_30861.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_31495.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_34869.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_36158.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_36559.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_37434.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_39147.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_43754.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_44011.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_44158.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_48076.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_48961.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_49648.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_49703.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_51128.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_51343.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_51842.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_54554.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_100_55749.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_17256.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_20244.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_20245.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_30149.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_30499.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_36186.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_39262.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_43966.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_45279.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_48029.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_49064.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_49801.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_50681.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_54039.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58265.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58358.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58866.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10188_60810.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_21358.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_21597.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_30111.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_30349.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_31746.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_31822.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_35220.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_37603.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_37964.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_39508.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_42164.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_42577.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_44072.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_45522.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46700.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46719.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46744.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_48517.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_49087.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_50034.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_51475.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_53483.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_53506.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_54598.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_55614.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_55737.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57090.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57705.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57785.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_58463.txt 168: 168: testChEMBfopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: L_Txt() chembl_II_sets/Target_no_10193_58700.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_61003.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10193_61349.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10260_38526.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10260_50778.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10260_52179.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10260_54285.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_30224.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_31222.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37349.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37369.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37465.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37541.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_38371.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_44314.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_44578.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_45765.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_46281.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_47928.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_50624.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51341.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51662.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51767.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53081.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53396.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53407.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_58823.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_59190.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_60672.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10280_61176.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10434_20905.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30074.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30175.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30423.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10434_31555.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10434_34878.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10434_35926.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10434_42168.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_20859.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_30060.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_30061.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_30606.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_30866.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_31249.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_34921.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_35188.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_36636.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_37466.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_39202.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_43952.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_49345.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_49591.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_49854.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_51416.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_53537.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_58879.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_60679.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_107_61269.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_20600.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_20859.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_30060.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_30606.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_30866.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_31558.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_35188.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_37466.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_43875.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_48911.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_49591.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_49854.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: no_108_57887.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_60679.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_108_6857.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_15478.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_20853.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30840.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30862.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30918.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30994.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31014.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31508.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31623.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35003.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35004.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35281.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35957.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_36520.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_36641.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_38586.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_44431.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_45093.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_51302.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_5247.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_52937.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_57198.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_5739.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_10980_6535.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_20205.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_20986.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_30091.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_34698.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_34705.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37038.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37272.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37447.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_38909.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_38953.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_39472.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_45825.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_47179.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_49028.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_49860.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_51984.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_53395.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_53826.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_54121.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_54530.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_55738.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_57725.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11140_58590.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11365_20432.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11365_30331.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11365_37956.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11365_48114.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11365_58566.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_34731.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_34818.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37318.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37339.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37564.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_39504.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_39561.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_46082.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_46089.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_47349.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_47757.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_51593.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_54754.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_58262.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11489_58958.txt 168: 168: testChEMBL_Txt(fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: ) chembl_II_sets/Target_no_114_16827.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_20503.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_20724.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_30254.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_30321.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_30572.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_31116.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_31281.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_31443.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_34747.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_34920.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_35040.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_36623.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_37136.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_37208.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_38298.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_38554.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_39088.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_39543.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_44049.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_44562.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_45180.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_45867.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_46087.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_46829.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_47546.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_48395.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_50461.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_50765.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_51669.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_52381.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_57231.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_114_58246.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_30999.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_31021.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_31650.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_35011.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_37014.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_44598.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_48446.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50614.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50615.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50618.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11534_51950.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11575_31616.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11575_38381.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11575_45757.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11575_46816.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11575_50701.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11575_54049.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11575_57890.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11575_61045.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11631_30194.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11631_31421.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11631_35538.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11631_55727.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11631_60676.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11631_61130.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_11631_6444.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_15623.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_20096.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_21591.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_30184.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_30380.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_30745.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_30861.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_31619.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_34869.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_35284.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_36158.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_36915.txt 168: 168: testChEMBL_Txfopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: t() chembl_II_sets/Target_no_121_37434.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_37541.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_37677.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_38837.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_39530.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_43793.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_44158.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_44164.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_44579.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_44593.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_44692.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_44914.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_45878.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_48050.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_48706.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_48944.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_48961.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_49880.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_50055.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_50512.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_51064.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_53537.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_55749.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_58879.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_121_6876.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12209_44664.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12209_46451.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12209_50640.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12209_56102.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12209_58015.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12209_59089.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12209_59092.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12209_61340.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12252_31458.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12252_38481.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12252_42104.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12252_49475.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12252_49933.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12252_50558.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_126_37249.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_126_39117.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_126_48227.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_126_48229.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_126_53969.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_126_54262.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_126_55353.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_126_61212.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20250.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20506.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20626.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20689.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_21358.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_30158.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_30349.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_34843.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_35220.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_36318.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_36800.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_39349.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_45385.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_45676.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_46700.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_46719.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_48517.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_52690.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_53483.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_55435.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_56102.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_58015.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_12952_58375.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_1295fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: 2_58700.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_16724.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_2710.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_30128.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_31250.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_35519.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_36905.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_46788.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_4737.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_55736.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_13001_57473.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_16146.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_30313.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_30539.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_30653.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_30988.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_31179.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_31339.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_3525.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_36886.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_37020.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_38128.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_43952.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_45210.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_45899.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_47889.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_51800.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_53158.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_5330.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_55648.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_56096.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_57287.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_57399.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_57606.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_58470.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_130_60894.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_15010.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_20304.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_20542.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_20788.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_21358.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_30349.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_31103.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_31764.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_31822.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_35220.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_37964.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_42164.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_44072.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_45522.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_46719.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_46744.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_48416.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_49740.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_50034.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_50640.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_53483.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_53506.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_53814.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_55435.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_56074.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_56107.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_57090.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_57705.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_57785.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_57861.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_58583.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_59089.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_15_59092.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_20600.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_30764.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_34876.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_37427.tfopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: xt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_38266.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_45283.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_46990.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_47123.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_47900.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_48050.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_48062.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_48076.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_50718.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_50972.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_51372.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_51830.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_53049.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_53505.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_54021.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_54565.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_54570.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_57666.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_57890.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_58072.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_58634.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_58643.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_59080.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_59202.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_59346.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_60379.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_60385.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_165_61098.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_17045_31154.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_17045_35648.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_17045_48914.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_17045_51975.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_17045_52435.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_17045_55790.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_17045_58958.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_17045_61146.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20191.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20562.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20606.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20607.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30003.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30402.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30726.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30924.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31457.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31460.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31600.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31620.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31640.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31782.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31797.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31829.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31856.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34690.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34691.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34694.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_35712.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_37497.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_37539.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48070.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48219.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48824.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48902.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_52867.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_53534.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_54570.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_58727.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_60159.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_19905_60661.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_30037.txt 168: 168: testChEMBL_Txt() chefopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: mbl_II_sets/Target_no_259_34734.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_35365.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_35787.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_36793.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_37845.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_38328.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_39374.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_43936.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_44059.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_44405.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_44424.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_45166.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_46158.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_46425.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_47187.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_48435.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_48817.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_48849.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_48957.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_48965.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_49519.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_49921.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_50392.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_50972.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_52405.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_52442.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_53169.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_54640.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_57207.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_58537.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_58920.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_259_60358.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_25_16077.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_25_34943.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_25_36391.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_25_36574.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_25_52906.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_25_54642.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_16385.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_20333.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_20774.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_35825.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_37637.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_47741.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_48567.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_48841.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_49589.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_50564.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_51201.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_53150.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_55747.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_43_58276.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_20813.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_2331.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_2391.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_30374.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_30512.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_30796.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_31058.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_31450.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_36609.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_36636.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_38266.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_43800.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_47621.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_49433.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_49550.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_49865.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_51005.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_52373.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_53878.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_54554.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_57508.txtfopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_57618.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_59484.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_51_6563.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_61_16845.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_61_37106.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_61_37272.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_61_47947.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_61_50754.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_61_55800.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_61_57380.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_65_35328.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_65_36137.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_65_38826.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_65_44596.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_65_51275.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_65_55671.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_20155.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_30616.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_30653.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_30988.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_31339.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_31527.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_31631.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_36047.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_36568.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_36636.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_37020.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_38128.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_43952.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_45210.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_47889.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_51064.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_51800.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_5330.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_57508.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_58470.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_72_60894.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_20730.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_20753.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_30097.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_30663.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_35365.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_35375.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_35918.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_36010.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_36780.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_36793.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_37845.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_39110.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_39546.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_43936.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_44405.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_44424.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_44683.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_45166.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_46648.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_46986.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_47070.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_47187.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_48435.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_48817.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_49138.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_49460.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_49519.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_49532.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_49829.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_50608.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_54640.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_87_61082.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_90_15727.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_90_20155.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_90_30407.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_90_3525.txt 168: 168: testChEMBfopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: fopen testChEMBL_Txt(): No such file or directory 168: L_Txt() chembl_II_sets/Target_no_93_12377.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_93_1308.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_93_34759.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_93_35447.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_93_42214.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_93_45877.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_93_47082.txt 168: 168: testChEMBL_Txt() chembl_II_sets/Target_no_93_57082.txt 168: 168: testFileSDF_RandomSet(): benchmark/chembl13-10000-random-pairs.sdf 168: ERROR: RDKit could not load input file 168: 168: testFileSDF_RandomSet(): benchmark/chembl13_pairs.smi 168: ERROR: RDKit could not load input file 168: 168: testFileSDF_RandomSet(): benchmark/chembl13_knearest_2.smi 168: ERROR: RDKit could not load input file 168: 168: testFileSDF_RandomSet(): benchmark/chembl13_knearest_10.smi 168: ERROR: RDKit could not load input file 168: 168: testFileSDF_RandomSet(): benchmark/chembl13_knearest_100.smi 168: ERROR: RDKit could not load input file 168: 168: testFileSDF_RandomSet(): benchmark/chembl13_threshold_80.smi 168: ERROR: RDKit could not load input file 168: 168: testFileSDF_RandomSet(): benchmark/chembl13_threshold_90.smi 168: ERROR: RDKit could not load input file 161/246 Test #168: FMCStest ............................... Passed 0.05 sec test 169 Start 169: molHashCatchTest 169: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/molHashCatchTest 169: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash 169: Test timeout computed to be: 7200 169: Randomness seeded to: 2209915822 169: =============================================================================== 169: All tests passed (411 assertions in 18 test cases) 169: 151: .........[05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: .[05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: .[05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 162/246 Test #169: molHashCatchTest ....................... Passed 0.10 sec test 170 Start 170: pyMolHash 170: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/Wrap/testMolHash.py" 170: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap 170: Test timeout computed to be: 7200 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 151: [05:16:31] Molecule does not have explicit Hs. Consider calling AddHs() 170: .... 170: ---------------------------------------------------------------------- 170: Ran 4 tests in 0.017s 170: 170: OK 163/246 Test #170: pyMolHash .............................. Passed 0.45 sec test 171 Start 171: testMMPA 171: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/testMMPA 171: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA 171: Test timeout computed to be: 7200 171: 171: TEST mol: Case1 Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1 Case1 171: Time elapsed 0.010495 seconds 171: 1: res= NULL,C[*:1].C[C:7](C(=O)Nc1ccccc1[*:1])[NH+]1CCCC1 171: 1: NOREF. Reference data NOT LISTED in test case. 171: 2: res= c1ccc([*:2])c([*:1])c1,C[*:1].C[C:7](C(=O)N[*:2])[NH+]1CCCC1 171: 2: NOREF. Reference data NOT LISTED in test case. 171: 3: res= O=C(Nc1ccccc1[*:1])[*:2],C[*:1].C[C:7]([NH+]1CCCC1)[*:2] 171: 3: NOREF. Reference data NOT LISTED in test case. 171: 4: res= O=C(Nc1ccccc1[*:1])[C:7]([NH+]1CCCC1)[*:2],C[*:1].C[*:2] 171: 4: NOREF. Reference data NOT LISTED in test case. 171: 5: res= O=C(Nc1ccccc1[*:1])[C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].C[*:2] 171: 5: NOREF. Reference data NOT LISTED in test case. 171: 6: res= C[C:7](C(=O)Nc1ccccc1[*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 171: 6: NOREF. Reference data NOT LISTED in test case. 171: 7: res= NULL,C[C:7](C(=O)N[*:1])[NH+]1CCCC1.Cc1ccccc1[*:1] 171: 7: NOREF. Reference data NOT LISTED in test case. 171: 8: res= O=C(N[*:2])[*:1],C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1[*:2] 171: 8: NOREF. Reference data NOT LISTED in test case. 171: 9: res= O=C(N[*:2])[C:7]([NH+]1CCCC1)[*:1],C[*:1].Cc1ccccc1[*:2] 171: 9: NOREF. Reference data NOT LISTED in test case. 171: 10: res= O=C(N[*:3])[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1].Cc1ccccc1[*:3] 171: 10: NOREF. Reference data NOT LISTED in test case. 171: 11: res= C[C:7](C(=O)N[*:2])[*:1],C1CC[NH+]([*:1])C1.Cc1ccccc1[*:2] 171: 11: NOREF. Reference data NOT LISTED in test case. 171: 12: res= NULL,C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1NC(=O)[*:1] 171: 12: NOREF. Reference data NOT LISTED in test case. 171: 13: res= C1CC[NH+]([C:7]([*:1])[*:2])C1,C[*:1].Cc1ccccc1NC(=O)[*:2] 171: 13: NOREF. Reference data NOT LISTED in test case. 171: 14: res= [*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].Cc1ccccc1NC(=O)[*:2] 171: 14: NOREF. Reference data NOT LISTED in test case. 171: 15: res= C[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.Cc1ccccc1NC(=O)[*:1] 171: 15: NOREF. Reference data NOT LISTED in test case. 171: 16: res= NULL,C[*:1].Cc1ccccc1NC(=O)[C:7]([NH+]1CCCC1)[*:1] 171: 16: NOREF. Reference data NOT LISTED in test case. 171: 17: res= Cc1ccccc1NC(=O)[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 171: 17: NOREF. Reference data NOT LISTED in test case. 171: 18: res= NULL,C1CC[NH+]([*:1])C1.Cc1ccccc1NC(=O)[C:7](C)[*:1] 171: 18: NOREF. Reference data NOT LISTED in test case. 171: 171: --- UNMATCHED Reference RESULTS: --- 171: 1: Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1,Case1,[*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:2].Cc1ccccc1NC(=O)[*:1] 171: ----------------------------------- 171: Time elapsed 0.006372 seconds 171: 171: TEST 1 mol: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-] ZINC21984717 171: 1: NULL, C[*:1].O=C(NCCO)c1c([*:1])n([O-])c2ccccc2[n+]1=O 171: 1: PASSED. matchedRefRes = 4 171: 2: O=[n+]1c([*:2])c([*:1])n([O-])c2ccccc21, C[*:1].O=C(NCCO)[*:2] 171: 2: PASSED. matchedRefRes = 1 171: 3: O=C(N[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].OCC[*:2] 171: 3: PASSED. matchedRefRes = 6 171: 4: O=C(NC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].OC[*:2] 171: 4: PASSED. matchedRefRes = 13 171: 5: O=C(NCC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].O[*:2] 171: 5: PASSED. matchedRefRes = 12 171: 6: NULL, Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O=C(NCCO)[*:1] 171: 6: PASSED. matchedRefRes = 10 171: 7: O=C(N[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 171: 7: NOREF. Reference data NOT LISTED in test case.O=C(N[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 171: 8: O=C(NC[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 171: 8: NOREF. Reference data NOT LISTED in test case.O=C(NC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 171: 9: O=C(NCC[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 171: 9: NOREF. Reference data NOT LISTED in test case.O=C(NCC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 171: 10: NULL, Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 171: 10: PASSED. matchedRefRes = 3 171: 11: C([*:1])[*:2], Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 171: 11: NOREF. Reference data NOT LISTED in test case.C([*:1])[*:2],Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 171: 12: C(C[*:2])[*:1], Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 171: 12: PASSED. matchedRefRes = 8 171: 13: NULL, Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:1] 171: 13: PASSED. matchedRefRes = 9 171: 14: C([*:1])[*:2], Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 171: 14: PASSED. matchedRefRes = 11 171: 15: NULL, Cc1c(C(=O)NCC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:1] 171: 15: PASSED. matchedRefRes = 2 171: 171: --- UNMATCHED Reference RESULTS: --- 171: 5: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,C([*:1])[*:2],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 171: 7: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(N[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:2] 171: 14: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NCC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 171: 15: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 171: ----------------------------------- 171: 171: TEST mol: ZINC21984717 Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-] ZINC21984717 171: Time elapsed 0.001966 seconds 171: 1: res= NULL,C[*:1].O=C(NCCO)c1c([*:1])n([O-])c2ccccc2[n+]1=O 171: 1: PASSED. matchedRefRes = 4 171: 2: res= O=[n+]1c([*:2])c([*:1])n([O-])c2ccccc21,C[*:1].O=C(NCCO)[*:2] 171: 2: PASSED. matchedRefRes = 1 171: 3: res= O=C(N[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].OCC[*:2] 171: 3: PASSED. matchedRefRes = 6 171: 4: res= O=C(NC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].OC[*:2] 171: 4: PASSED. matchedRefRes = 13 171: 5: res= O=C(NCC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].O[*:2] 171: 5: PASSED. matchedRefRes = 12 171: 6: res= NULL,Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O=C(NCCO)[*:1] 171: 6: PASSED. matchedRefRes = 10 171: 7: res= O=C(N[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 171: 7: NOREF. Reference data NOT LISTED in test case. 171: 8: res= O=C(NC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 171: 8: NOREF. Reference data NOT LISTED in test case. 171: 9: res= O=C(NCC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 171: 9: NOREF. Reference data NOT LISTED in test case. 171: 10: res= NULL,Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 171: 10: PASSED. matchedRefRes = 3 171: 11: res= C([*:1])[*:2],Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 171: 11: NOREF. Reference data NOT LISTED in test case. 171: 12: res= C(C[*:2])[*:1],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 171: 12: PASSED. matchedRefRes = 8 171: 13: res= NULL,Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:1] 171: 13: PASSED. matchedRefRes = 9 171: 14: res= C([*:1])[*:2],Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 171: 14: PASSED. matchedRefRes = 11 171: 15: res= NULL,Cc1c(C(=O)NCC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:1] 171: 15: PASSED. matchedRefRes = 2 171: 171: --- UNMATCHED Reference RESULTS: --- 171: 5: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,C([*:1])[*:2],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 171: 7: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(N[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:2] 171: 14: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NCC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 171: 15: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 171: ----------------------------------- 171: 171: TEST mol: Case1-SIMPLE CC(N1CC1)C(=O) Case1-SIMPLE 171: Time elapsed 0.000542 seconds 171: 1: res= NULL,C[*:1].O=CC(N1CC1)[*:1] 171: 1: PASSED. matchedRefRes = 2 171: 2: res= O=CC([*:1])[*:2],C1CN1[*:2].C[*:1] 171: 2: PASSED. matchedRefRes = 3 171: 3: res= C([*:1])([*:2])[*:3],C1CN1[*:3].C[*:1].O=C[*:2] 171: 3: NOREF. Reference data NOT LISTED in test case. 171: 4: res= C1CN1C([*:1])[*:2],C[*:1].O=C[*:2] 171: 4: PASSED. matchedRefRes = 4 171: 5: res= NULL,C1CN1[*:1].CC(C=O)[*:1] 171: 5: PASSED. matchedRefRes = 5 171: 6: res= CC([*:1])[*:2],C1CN1[*:2].O=C[*:1] 171: 6: NOREF. Reference data NOT LISTED in test case. 171: 7: res= NULL,CC(N1CC1)[*:1].O=C[*:1] 171: 7: PASSED. matchedRefRes = 7 171: 171: --- UNMATCHED Reference RESULTS: --- 171: 1: CC(N1CC1)C(=O),Case1-SIMPLE,C([*:1])([*:2])[*:3],C1CN1[*:2].C[*:1].O=C[*:3] 171: 6: CC(N1CC1)C(=O),Case1-SIMPLE,CC([*:1])[*:2],C1CN1[*:1].O=C[*:2] 171: ----------------------------------- 171: 171: TEST mol: Case1 Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1 Case1 171: Time elapsed 0.002159 seconds 171: 1: res= NULL,C[*:1].C[C:7](C(=O)Nc1ccccc1[*:1])[NH+]1CCCC1 171: 1: NOREF. Reference data NOT LISTED in test case. 171: 2: res= c1ccc([*:2])c([*:1])c1,C[*:1].C[C:7](C(=O)N[*:2])[NH+]1CCCC1 171: 2: NOREF. Reference data NOT LISTED in test case. 171: 3: res= O=C(Nc1ccccc1[*:1])[*:2],C[*:1].C[C:7]([NH+]1CCCC1)[*:2] 171: 3: NOREF. Reference data NOT LISTED in test case. 171: 4: res= O=C(Nc1ccccc1[*:1])[C:7]([NH+]1CCCC1)[*:2],C[*:1].C[*:2] 171: 4: NOREF. Reference data NOT LISTED in test case. 171: 5: res= O=C(Nc1ccccc1[*:1])[C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].C[*:2] 171: 5: NOREF. Reference data NOT LISTED in test case. 171: 6: res= C[C:7](C(=O)Nc1ccccc1[*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 171: 6: NOREF. Reference data NOT LISTED in test case. 171: 7: res= NULL,C[C:7](C(=O)N[*:1])[NH+]1CCCC1.Cc1ccccc1[*:1] 171: 7: NOREF. Reference data NOT LISTED in test case. 171: 8: res= O=C(N[*:2])[*:1],C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1[*:2] 171: 8: NOREF. Reference data NOT LISTED in test case. 171: 9: res= O=C(N[*:2])[C:7]([NH+]1CCCC1)[*:1],C[*:1].Cc1ccccc1[*:2] 171: 9: NOREF. Reference data NOT LISTED in test case. 171: 10: res= O=C(N[*:3])[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1].Cc1ccccc1[*:3] 171: 10: NOREF. Reference data NOT LISTED in test case. 171: 11: res= C[C:7](C(=O)N[*:2])[*:1],C1CC[NH+]([*:1])C1.Cc1ccccc1[*:2] 171: 11: NOREF. Reference data NOT LISTED in test case. 171: 12: res= NULL,C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1NC(=O)[*:1] 171: 12: NOREF. Reference data NOT LISTED in test case. 171: 13: res= C1CC[NH+]([C:7]([*:1])[*:2])C1,C[*:1].Cc1ccccc1NC(=O)[*:2] 171: 13: NOREF. Reference data NOT LISTED in test case. 171: 14: res= [*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].Cc1ccccc1NC(=O)[*:2] 171: 14: NOREF. Reference data NOT LISTED in test case. 171: 15: res= C[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.Cc1ccccc1NC(=O)[*:1] 171: 15: NOREF. Reference data NOT LISTED in test case. 171: 16: res= NULL,C[*:1].Cc1ccccc1NC(=O)[C:7]([NH+]1CCCC1)[*:1] 171: 16: NOREF. Reference data NOT LISTED in test case. 171: 17: res= Cc1ccccc1NC(=O)[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 171: 17: NOREF. Reference data NOT LISTED in test case. 171: 18: res= NULL,C1CC[NH+]([*:1])C1.Cc1ccccc1NC(=O)[C:7](C)[*:1] 171: 18: NOREF. Reference data NOT LISTED in test case. 171: 171: --- UNMATCHED Reference RESULTS: --- 171: 1: Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1,Case1,[*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:2].Cc1ccccc1NC(=O)[*:1] 171: ----------------------------------- 171: 171: TEST mol: Case2 O=C(OCc1ccccc1)C(O)c1ccccc1 Case2 171: Time elapsed 0.002317 seconds 171: 1: res= NULL,O=C(O[*:1])C(O)c1ccccc1.c1ccc(C[*:1])cc1 171: 1: NOREF. Reference data NOT LISTED in test case. 171: 2: res= C([*:1])[*:2],O=C(O[*:1])C(O)c1ccccc1.c1ccc([*:2])cc1 171: 2: NOREF. Reference data NOT LISTED in test case. 171: 3: res= O=C(O[*:2])[*:1],OC(c1ccccc1)[*:1].c1ccc(C[*:2])cc1 171: 3: NOREF. Reference data NOT LISTED in test case. 171: 4: res= O=C(O[*:1])C(c1ccccc1)[*:2],O[*:2].c1ccc(C[*:1])cc1 171: 4: NOREF. Reference data NOT LISTED in test case. 171: 5: res= O=C(O[*:1])C([*:2])[*:3],O[*:2].c1ccc(C[*:1])cc1.c1ccc([*:3])cc1 171: 5: NOREF. Reference data NOT LISTED in test case. 171: 6: res= O=C(O[*:1])C(O)[*:2],c1ccc(C[*:1])cc1.c1ccc([*:2])cc1 171: 6: NOREF. Reference data NOT LISTED in test case. 171: 7: res= NULL,O=C(OC[*:1])C(O)c1ccccc1.c1ccc([*:1])cc1 171: 7: NOREF. Reference data NOT LISTED in test case. 171: 8: res= O=C(OC[*:2])[*:1],OC(c1ccccc1)[*:1].c1ccc([*:2])cc1 171: 8: NOREF. Reference data NOT LISTED in test case. 171: 9: res= O=C(OC[*:2])C(c1ccccc1)[*:1],O[*:1].c1ccc([*:2])cc1 171: 9: NOREF. Reference data NOT LISTED in test case. 171: 10: res= O=C(OC[*:2])C([*:1])[*:3],O[*:1].c1ccc([*:2])cc1.c1ccc([*:3])cc1 171: 10: NOREF. Reference data NOT LISTED in test case. 171: 11: res= O=C(OC[*:1])C(O)[*:2],c1ccc([*:1])cc1.c1ccc([*:2])cc1 171: 11: NOREF. Reference data NOT LISTED in test case. 171: 12: res= NULL,O=C(OCc1ccccc1)[*:1].OC(c1ccccc1)[*:1] 171: 12: NOREF. Reference data NOT LISTED in test case. 171: 13: res= c1ccc(C([*:1])[*:2])cc1,O=C(OCc1ccccc1)[*:1].O[*:2] 171: 13: NOREF. Reference data NOT LISTED in test case. 171: 14: res= C([*:1])([*:2])[*:3],O=C(OCc1ccccc1)[*:1].O[*:2].c1ccc([*:3])cc1 171: 14: PASSED. matchedRefRes = 1 171: 15: res= OC([*:1])[*:2],O=C(OCc1ccccc1)[*:1].c1ccc([*:2])cc1 171: 15: NOREF. Reference data NOT LISTED in test case. 171: 16: res= NULL,O=C(OCc1ccccc1)C(c1ccccc1)[*:1].O[*:1] 171: 16: NOREF. Reference data NOT LISTED in test case. 171: 17: res= O=C(OCc1ccccc1)C([*:1])[*:2],O[*:1].c1ccc([*:2])cc1 171: 17: NOREF. Reference data NOT LISTED in test case. 171: 18: res= NULL,O=C(OCc1ccccc1)C(O)[*:1].c1ccc([*:1])cc1 171: 18: NOREF. Reference data NOT LISTED in test case. 171: 171: --- ALL PASSED --- 171: ----------------------------------- 171: 5 TEST CASES FAILED 164/246 Test #171: testMMPA ............................... Passed 0.15 sec test 172 Start 172: pyMMPA 172: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/Wrap/testMMPA.py" 172: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap 172: Test timeout computed to be: 7200 172: ......... 172: ---------------------------------------------------------------------- 172: Ran 9 tests in 2.194s 172: 172: OK 165/246 Test #172: pyMMPA ................................. Passed 2.66 sec test 173 Start 173: testRascalMCES 173: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/testRascalMCES 173: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES 173: Test timeout computed to be: 7200 151: .... 151: ---------------------------------------------------------------------- 151: Ran 23 tests in 26.216s 151: 151: OK 166/246 Test #151: pyDistGeomHelpers ...................... Passed 26.82 sec test 174 Start 174: testRascalCluster 174: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/testRascalCluster 174: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES 174: Test timeout computed to be: 7200 174: Randomness seeded to: 384944098 174: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/data/chembl_1907596.smi 166: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 166: MCS MatchStereo true : [#6]-[#6]-[#6] 3 atoms, 2 bonds 166: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 166: MCS MatchStereo true : [#6]-[#6]-[#6] 3 atoms, 2 bonds 166: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 166: MCS MatchStereo true : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 166: TOTAL Time elapsed 14.84 seconds 167/246 Test #166: testFMCS ............................... Passed 14.93 sec test 175 Start 175: pyRascalMCES 175: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/Wrap/testRascalMCES.py" 175: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/Wrap 175: Test timeout computed to be: 7200 175: ..........[05:16:42] Too many matching bond pairs (1032) so can't continue. 175: .... 175: ---------------------------------------------------------------------- 175: Ran 14 tests in 2.273s 175: 175: OK 168/246 Test #175: pyRascalMCES ........................... Passed 2.97 sec test 176 Start 176: testSynthonSpaceSubstructureSearch 176: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch 176: Test timeout computed to be: 7200 176: Randomness seeded to: 1716713757 176: [05:16:46] Writing the enumerated file may take quite some time and result in a large file. 153: --------------------------------- 153: test getO3AForProbeConfs 153: 153: *********************************************************** 169/246 Test #153: testO3AAlign ........................... Passed 37.38 sec test 177 Start 177: testSynthonSpaceFingerprintSearch 177: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceFingerprintSearch 177: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch 177: Test timeout computed to be: 7200 177: Randomness seeded to: 1749919970 177: [05:16:47] Building the fingerprints may take some time. 177: [05:16:47] Building the fingerprints may take some time. 177: [05:16:48] Building the fingerprints may take some time. 173: Randomness seeded to: 3120934026 173: =============================================================================== 173: All tests passed (1588 assertions in 35 test cases) 173: 170/246 Test #173: testRascalMCES ......................... Passed 15.18 sec test 178 Start 178: testSynthonSpaceRascalSearch 178: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceRascalSearch 178: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch 178: Test timeout computed to be: 7200 150: [05:16:50] UFFTYPER: Unrecognized atom type: S_6+6 (0) 150: [05:16:50] UFFTYPER: Warning: hybridization set to SP3 for atom 0 150: [05:16:50] UFFTYPER: Unrecognized charge state for atom: 0 176: [05:16:50] Building the fingerprints may take some time. 176: [05:16:51] 176: 176: **** 176: Invariant Violation 176: molzip: bond info not properly setup for bgn atom with label:1 176: Violation occurred on line 1093 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 176: Failed Expression: bond.a 176: ---------- 176: Stacktrace: 176: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 176: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 176: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 176: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 176: 4# RDKit::molzip(RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 176: 5# RDKit::SynthonSpaceSearch::SynthonSet::makeSynthonSearchMols() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 176: 6# RDKit::SynthonSpaceSearch::SynthonSpace::readStream(std::istream&, bool&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 176: 7# RDKit::SynthonSpaceSearch::SynthonSpace::readTextFile(std::__cxx11::basic_string, std::allocator > const&, bool&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 176: 8# 0x0000AAAAC8AAECD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: 9# 0x0000AAAAC8AF950C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: 10# 0x0000AAAAC8AF9EC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: 11# 0x0000AAAAC8AFA2F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: 12# 0x0000AAAAC8ACEA58 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: 13# 0x0000AAAAC8ACEF8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: 14# 0x0000AAAAC8AADC2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: 15# 0x0000FFFFA901255C in /usr/lib/aarch64-linux-gnu/libc.so.6 176: 16# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 176: 17# 0x0000AAAAC8AADCF0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 176: ---------- 176: **** 176: 176: [05:16:51] Error:: in reaction amide-1 :: building molecule from synthons : 1-1 (c1cc[1*]ccc1C(=O)[1*]) and 2-1 ([1*]N1CCCC1) 176: molzip: bond info not properly setup for bgn atom with label:1 176: [05:16:51] Explicit valence for atom # 4 C, 5, is greater than permitted 176: [05:16:51] Error:: in reaction error-1 :: building molecule from synthons : 1-1 (C(=[2*])=CC=[1*]) and 2-1 (ClC([2*])=CN=[1*]) 176: Explicit valence for atom # 4 C, 5, is greater than permitted 176: [05:16:51] Complex queries can be slow. 178: Randomness seeded to: 52445913 178: =============================================================================== 178: All tests passed (15 assertions in 1 test case) 178: 171/246 Test #178: testSynthonSpaceRascalSearch ........... Passed 1.62 sec test 179 Start 179: pySynthonSpaceSearch 179: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/Wrap/testSynthonSpaceSearch.py" 179: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap 179: Test timeout computed to be: 7200 176: [05:16:51] Complex queries can be slow. 176: [05:16:51] Complex queries can be slow. 177: [05:16:51] Building the fingerprints may take some time. 176: [05:16:51] Complex queries can be slow. 176: [05:16:52] Complex queries can be slow. 176: [05:16:52] Complex queries can be slow. 176: [05:16:52] Complex queries can be slow. 179: [05:16:52] Complex queries can be slow. 176: [05:16:52] Complex queries can be slow. 176: [05:16:52] Complex queries can be slow. 176: [05:16:53] Complex queries can be slow. 176: [05:16:53] Complex queries can be slow. 179: [05:16:53] Complex queries can be slow. 179: .[05:16:54] Writing the enumerated file may take quite some time and result in a large file. 179: .[05:16:54] Complex queries can be slow. 179: [05:16:54] Complex queries can be slow. 176: [05:17:01] Complex queries can be slow. 176: [05:17:01] Complex queries can be slow. 176: [05:17:01] Complex queries can be slow. 33: [05:17:01] Finished 33: [05:17:01] ------------------------------------- 33: [05:17:01] Test github1843: RWMol.clear() should not destroy ring pointer. 33: [05:17:01] Finished 33: [05:17:01] ------------------------------------- 33: [05:17:01] Test Github 6370: non-physical radical counts being preserved 176: [05:17:01] Complex queries can be slow. 33: [05:17:01] Finished 172/246 Test #33: graphmolTest1 .......................... Passed 76.08 sec test 180 Start 180: testEnumerateStereoisomers 180: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/testEnumerateStereoisomers 180: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers 180: Test timeout computed to be: 7200 176: [05:17:01] Complex queries can be slow. 176: [05:17:02] Complex queries can be slow. 176: [05:17:02] Complex queries can be slow. 176: [05:17:02] Complex queries can be slow. 176: [05:17:02] Complex queries can be slow. 176: [05:17:03] Complex queries can be slow. 176: [05:17:03] Complex queries can be slow. 176: [05:17:03] Complex queries can be slow. 176: [05:17:03] Complex queries can be slow. 176: [05:17:04] Complex queries can be slow. 176: [05:17:04] Complex queries can be slow. 176: [05:17:04] Complex queries can be slow. 176: [05:17:04] Complex queries can be slow. 149: [05:17:05] done 176: [05:17:05] Complex queries can be slow. 176: [05:17:05] Complex queries can be slow. 176: =============================================================================== 176: All tests passed (138 assertions in 21 test cases) 176: 173/246 Test #176: testSynthonSpaceSubstructureSearch ..... Passed 20.58 sec test 181 Start 181: pyNewEnumerateStereoisomers 181: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/Wrap/testEnumerateStereoisomers.py" 181: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap 181: Test timeout computed to be: 7200 181: .. 181: ---------------------------------------------------------------------- 181: Ran 2 tests in 0.562s 181: 181: OK 174/246 Test #181: pyNewEnumerateStereoisomers ............ Passed 0.97 sec test 182 Start 182: testCIPLabeler 182: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/testCIPLabeler 182: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler 182: Test timeout computed to be: 7200 182: Randomness seeded to: 2636711519 182: [05:17:06] non kekulizable aromatic bond being treated as bond order 1 182: [05:17:06] non kekulizable aromatic bond being treated as bond order 1 182: [05:17:06] non kekulizable aromatic bond being treated as bond order 1 182: [05:17:06] non kekulizable aromatic bond being treated as bond order 1 182: [05:17:06] non kekulizable aromatic bond being treated as bond order 1 182: [05:17:06] non kekulizable aromatic bond being treated as bond order 1 182: [05:17:06] Interrupted, cancelling CIP label calculation 182: [05:17:06] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 182: [05:17:06] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 182: =============================================================================== 182: All tests passed (6595 assertions in 20 test cases) 182: 175/246 Test #182: testCIPLabeler ......................... Passed 0.28 sec test 183 Start 183: pyCIPLabelsWrapTest 183: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Wrap/pyCIPLabelWrapTest.py" 183: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap 183: Test timeout computed to be: 7200 183: .... 183: ---------------------------------------------------------------------- 183: Ran 4 tests in 0.017s 183: 183: OK 176/246 Test #183: pyCIPLabelsWrapTest .................... Passed 0.46 sec test 184 Start 184: pyCIPLabelsValidation 184: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Wrap/pyCIPLabelsValidation.py" 184: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap 184: Test timeout computed to be: 7200 149: [05:17:05] --------------------------------- 149: [05:17:05] test github issue 256: handling of zero-atom molecules 149: 149: [05:17:05] --------------------------------- 149: [05:17:05] test embedder callback function 149: [05:17:05] --------------------------------- 149: [05:17:05] test multi-threaded multi-conf embedding 149: 149: [05:17:09] --------------------------------- 149: [05:17:09] test github issue 563: Incorrect ring stereochemistry after embedding 149: 149: CNC[C@H]1CC[C@H](C[NH3+])CC1 149: [05:17:11] --------------------------------- 149: [05:17:11] test github issue 568: Incorrect stereochemistry after embedding 149: 149: C1=NC[C@]2(CN3CC[C@@H]2C3)O1 149: O=C(O)[C@@H]1[C@H](C(=O)O)[C@H]2CC[C@@H]1O2 149: O=C(CCc1ccccc1)OC[C@H]1C[C@@H]2O[C@H]1[C@H]1C(=O)OC(=O)[C@H]12 149: Cn1cc(C2=NC[C@]3(CN4CC[C@@H]3C4)O2)c2ccccc21 149: Nc1ncnc2c1ncn2[C@@H]1C=C(CO)[C@@H](O)[C@H]1O 149: CO[C@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 149: CO[C@@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 184: VS001: PASSED 184: VS002: PASSED 184: VS003: PASSED 184: VS004: PASSED 184: VS005: PASSED 184: VS006: PASSED 184: VS007: PASSED 184: VS008: PASSED 184: VS009: PASSED 184: VS010: PASSED 184: VS011: PASSED 184: VS012: PASSED 184: VS013: PASSED 184: VS014: PASSED 184: VS015: PASSED 184: VS016: PASSED 184: VS017: PASSED 184: VS018: PASSED 184: VS019: PASSED 184: VS020: PASSED 184: VS021: PASSED 184: VS022: PASSED 184: VS023: PASSED 184: VS024: PASSED 184: VS025: PASSED 184: VS026: PASSED 184: VS027: PASSED 184: VS028: PASSED 184: VS029: PASSED 184: VS030: PASSED 184: VS031: PASSED 184: VS032: PASSED 184: VS033: PASSED 184: VS034: PASSED 184: VS035: 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VS088: PASSED 184: VS089: PASSED 184: VS090: PASSED 184: VS091: PASSED 184: VS092: PASSED 184: VS093: PASSED 184: VS094: PASSED 184: VS095: PASSED 184: VS096: PASSED 184: VS097: PASSED 184: VS098: PASSED 184: VS099: PASSED 184: VS100: PASSED 184: VS101: PASSED 184: VS102: PASSED 184: VS103: PASSED 184: VS104: PASSED 184: VS105: PASSED 184: VS106: PASSED 184: VS107: PASSED 184: VS108: PASSED 184: VS109: PASSED 184: VS110: PASSED 184: VS111: PASSED 184: VS112: PASSED 184: VS113: PASSED 184: VS114: PASSED 184: VS115: PASSED 184: VS116: PASSED 184: VS117: PASSED 184: VS118: PASSED 184: VS119: PASSED 184: VS120: PASSED 184: VS121: PASSED 184: VS122: PASSED 184: VS123: PASSED 184: VS124: PASSED 184: VS125: PASSED 184: VS126: PASSED 184: VS127: PASSED 184: VS128: PASSED 184: VS129: PASSED 184: VS130: PASSED 184: VS131: PASSED 184: VS132: PASSED 184: VS133: PASSED 184: VS134: PASSED 184: VS135: PASSED 184: VS136: PASSED 184: VS137: PASSED 184: VS138: PASSED 184: VS139: PASSED 184: VS140: PASSED 184: VS141: PASSED 184: VS142: PASSED 184: VS143: PASSED 184: VS144: PASSED 184: VS145: PASSED 184: VS146: PASSED 184: VS147: PASSED 184: VS148: PASSED 184: VS149: PASSED 184: VS150: PASSED 184: VS151: PASSED 184: VS152: PASSED 184: VS153: PASSED 184: VS154: PASSED 184: VS155: PASSED 184: VS156: PASSED 184: VS157: PASSED 184: VS158: PASSED 184: VS159: PASSED 184: VS160: PASSED 184: VS161: PASSED 184: VS162: PASSED 184: VS163: PASSED 184: VS164: PASSED 184: VS165: PASSED 184: VS166: PASSED 184: VS167: PASSED 184: VS168: PASSED 184: VS169: PASSED 184: VS170: PASSED 184: VS171: PASSED 184: VS172: PASSED 184: VS173: PASSED 184: VS174: PASSED 184: VS175: PASSED 184: VS176: PASSED 184: VS177: PASSED 184: VS178: PASSED 184: VS179: PASSED 184: VS180: PASSED 184: VS181: PASSED 184: VS182: PASSED 184: VS183: PASSED 184: VS184: PASSED 184: VS185: PASSED 184: VS186: PASSED 184: VS187: PASSED 184: VS188: PASSED 184: VS189: PASSED 184: VS190: PASSED 184: VS191: PASSED 184: VS192: PASSED 184: VS193: PASSED 184: VS194: PASSED 184: VS195: PASSED 184: VS196: PASSED 184: VS197: PASSED 184: VS198: PASSED 184: VS199: PASSED 184: VS200: PASSED 184: VS201: PASSED 184: VS202: PASSED 184: VS203: PASSED 184: VS204: PASSED 184: VS205: PASSED 184: VS206: PASSED 184: VS207: PASSED 184: VS208: PASSED 184: VS209: PASSED 184: VS210: PASSED 184: VS211: PASSED 184: VS212: PASSED 184: VS213: PASSED 184: VS214: PASSED 184: VS215: PASSED 184: VS216: PASSED 184: VS217: PASSED 184: VS218: PASSED 184: VS219: PASSED 184: VS220: PASSED 184: VS221: PASSED 184: VS222: PASSED 184: VS223: PASSED 184: VS224: PASSED 184: VS225: PASSED 184: VS226: PASSED 184: VS227: PASSED 184: VS228: PASSED 184: VS229: PASSED 184: VS230: PASSED 184: VS231: PASSED 184: VS232: PASSED 184: VS233: PASSED 184: VS234: PASSED 184: VS235: PASSED 184: VS236: PASSED 184: VS237: PASSED 184: VS238: PASSED 184: VS239: PASSED 184: VS240: PASSED 184: VS241: PASSED 184: VS242: PASSED 184: VS243: PASSED 184: VS244: PASSED 184: VS245: PASSED 184: VS246: PASSED 184: VS247: PASSED 184: VS248: PASSED 184: VS249: PASSED 184: VS250: PASSED 184: VS251: PASSED 184: VS252: PASSED 184: VS253: PASSED 184: VS254: PASSED 184: VS255: PASSED 184: VS256: PASSED 184: VS257: PASSED 184: VS258: PASSED 184: VS259: PASSED 184: VS260: PASSED 184: VS261: PASSED 184: VS262: PASSED 184: VS263: PASSED 184: VS264: PASSED 184: VS265: PASSED 184: VS266: PASSED 184: VS267: PASSED 184: VS268: PASSED 184: VS269: PASSED 184: VS270: PASSED 184: VS271: PASSED 184: VS272: PASSED 184: VS273: PASSED 184: VS274: PASSED 184: VS275: PASSED 184: VS276: PASSED 184: VS277: PASSED 184: VS278: PASSED 184: VS279: PASSED 184: VS280: PASSED 184: VS281: PASSED 184: VS282: PASSED 184: VS283: PASSED 184: VS284: PASSED 184: VS285: PASSED 184: VS286: PASSED 184: VS287: PASSED 184: VS288: PASSED 184: VS289: PASSED 184: VS290: PASSED 184: VS291: PASSED 184: VS292: PASSED 184: VS293: PASSED 184: VS294: PASSED 184: VS295: PASSED 184: VS296: PASSED 184: VS297: PASSED 184: VS298: PASSED 184: VS299: PASSED 184: VS300: PASSED 184: Check finished: 0 molecules failed. 184: Failed: 177/246 Test #184: pyCIPLabelsValidation .................. Passed 6.67 sec test 185 Start 185: deprotectTest 185: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/deprotectTest 185: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect 185: Test timeout computed to be: 7200 185: Randomness seeded to: 1834817292 185: =============================================================================== 185: All tests passed (111 assertions in 3 test cases) 185: 178/246 Test #185: deprotectTest .......................... Passed 0.09 sec 149: CCS[C@@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O test 186 Start 186: pyDeprotect 186: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/Wrap/rough_test.py" 186: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap 186: Test timeout computed to be: 7200 177: =============================================================================== 177: All tests passed (53 assertions in 4 test cases) 177: 179/246 Test #177: testSynthonSpaceFingerprintSearch ...... Passed 27.08 sec test 187 Start 187: testReducedGraphs 187: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/testReducedGraphs 187: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs 187: Test timeout computed to be: 7200 187: Size: 315 [ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.3, 1, 0.3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.3, 1, 0.3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0.3, 1, 0.3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, ] 187: 180/246 Test #187: testReducedGraphs ...................... Passed 0.04 sec test 188 Start 188: pyReducedGraphs 188: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs/Wrap/testReducedGraphs.py" 188: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap 188: Test timeout computed to be: 7200 149: CCCCC[C@H](O)/C=C/[C@@]1(F)[C@H](O)C[C@H](O)[C@@H]1C/C=C\CCCC(=O)OC 186: ..... 186: ---------------------------------------------------------------------- 186: Ran 5 tests in 0.021s 186: 186: OK 186: Testing tert-butyldimethylsilyl 186: Testing methoxytrityl 186: Testing tetrahydropyranyl 186: Testing methoxymethyl_ether 186: Testing beta-Methoxyethoxymethyl_ether 186: Testing benzyl 186: Testing trimethylsilyl 186: Testing benzoyl 186: Testing pivaloyl 186: Testing triisopropylsilyl 186: Testing acetyl 186: Testing para-methoxybenzyl_ether 186: Testing triphenylmethyl 186: Testing phthaloyl 186: Testing trimethylsilylethoxymethyl 186: Testing para-methoxyphenyl 186: Testing tosyl 186: Testing tert-butyloxycarbonyl 186: Testing trifluoroacetyl 186: Testing benzoyl 186: Testing 9-fluorenylmethyloxycarbonyl 186: Testing benzylamine 186: Testing acetamide 186: Testing carbobenzyloxy 186: Testing Acetal/Ketal 186: Testing tert-butyldimethylsilyl 186: Testing methoxytrityl 186: Testing tetrahydropyranyl 186: Testing methoxymethyl_ether 186: Testing beta-Methoxyethoxymethyl_ether 186: Testing benzyl 186: Testing trimethylsilyl 186: Testing benzoyl 186: Testing pivaloyl 186: Testing triisopropylsilyl 186: Testing acetyl 186: Testing para-methoxybenzyl_ether 186: Testing triphenylmethyl 186: Testing phthaloyl 186: Testing trimethylsilylethoxymethyl 186: Testing para-methoxyphenyl 186: Testing tosyl 186: Testing tert-butyloxycarbonyl 186: Testing trifluoroacetyl 186: Testing benzoyl 186: Testing 9-fluorenylmethyloxycarbonyl 186: Testing benzylamine 186: Testing acetamide 186: Testing carbobenzyloxy 186: Testing Acetal/Ketal 181/246 Test #186: pyDeprotect ............................ Passed 0.36 sec test 189 Start 189: trajectoryTest 189: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/trajectoryTest 189: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory 189: Test timeout computed to be: 7200 188: ..... 188: ---------------------------------------------------------------------- 188: Ran 5 tests in 0.016s 188: 188: OK 182/246 Test #189: trajectoryTest ......................... Passed 0.29 sec test 190 Start 190: substructLibraryTest 190: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/substructLibraryTest 190: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary 190: Test timeout computed to be: 7200 190: [05:17:14] ------------------------------------- 190: [05:17:14] Test1 183/246 Test #188: pyReducedGraphs ........................ Passed 0.51 sec test 191 Start 191: substructLibraryCatchTest 191: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/substructLibraryCatchTest 191: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary 191: Test timeout computed to be: 7200 190: [05:17:14] done 190: [05:17:14] ------------------------------------- 190: [05:17:14] Test2 190: [05:17:15] done 190: [05:17:15] ------------------------------------- 190: [05:17:15] Test3 (stereo options) 190: [05:17:15] Done (stereo options) 190: [05:17:15] ------------------------------------- 190: [05:17:15] Test4 (trusted smiles) 191: Randomness seeded to: 1056749570 191: =============================================================================== 191: All tests passed (171 assertions in 5 test cases) 191: 184/246 Test #191: substructLibraryCatchTest .............. Passed 0.48 sec test 192 Start 192: pySubstructLibrary 192: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/Wrap/rough_test.py" 192: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap 192: Test timeout computed to be: 7200 190: [05:17:15] Done (trusted smiles) 190: [05:17:15] ------------------------------------- 190: [05:17:15] Testing C++ docs 190: [05:17:15] Done (C++ doc tests) 190: [05:17:15] ------------------------------------- 190: [05:17:15] Testing C++ ring query: PatternHolder 190: [05:17:15] Done (C++ ring query tests) 190: [05:17:15] ------------------------------------- 190: [05:17:15] Testing C++ ring query: TautomerPatternHolder 190: [05:17:15] Done (C++ ring query tests) 190: [05:17:15] ------------------------------------- 190: [05:17:15] Add Patterns 149: CCCCC[C@@H](O)/C=C/[C@@]1(F)[C@H](C/C=C\CCCC(=O)OC)[C@H](O)C[C@@H]1O 190: [05:17:17] ------------------------------------- 190: [05:17:17] testing PatternHolder 190: [05:17:17] ------------------------------------- 190: [05:17:17] testing TautomerPatternHolder 190: [05:17:17] ------------------------------------- 190: [05:17:17] testSegFaultInHolder 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position [05:17:17] SMILES1: Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf[05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES[05:17:17] [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: dsafsdf[05:17:17] SMILES 190: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES[05:17:17] Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1:^ 190: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf[05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf'' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: SMILES[05:17:17] SMILES Parse Error: check for mistakes around position [05:17:17] SMILES1: 190: [05:17:17] dsafsdf Parse Error: check for mistakes around position 190: Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: 190: [05:17:17] SMILES Parse Error: [05:17:17] ^ 190: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: 190: [05:17:17] ^ 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf[05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error[05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^[05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf[05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: 190: 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf[05:17:17] [05:17:17] SMILES Parse Error: check for mistakes around position SMILES 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: 1SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: : 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: dsafsdf 190: [05:17:17] SMILES[05:17:17] ^ 190: Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position [05:17:17] 1:SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] SMILES Parse Error: syntax error while parsing: dsafsdf 190: [05:17:17] SMILES Parse Error: check for mistakes around position 1: 190: [05:17:17] dsafsdf 190: [05:17:17] ^ 190: [05:17:17] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 190: [05:17:17] ------------------------------------- 190: [05:17:17] Results do not depend on numThreads 149: CNC(=O)Oc1cccc2c1OC[C@@H]1CCN(C)[C@H]21 149: CNC(=O)Oc1ccc2c(c1)[C@@H]1[C@@H](CCN1C)CO2 149: CN1CC[C@H]2COc3c(O)cccc3[C@H]21 149: CC(=O)C[C@@]12CCC[C@H]1[C@@H]1CCC3=CC(=O)CC[C@@H]3[C@H]1CC2 149: O=C(O)[C@@H]1C[C@H]2C[C@@H](CCc3nn[nH]n3)CC[C@H]2CN1 149: COc1ccc2c(c1)OC[C@@H](N1CCC(O)(c3ccc(F)cc3)CC1)[C@H]2O 190: [05:17:20] ------------------------------------- 190: [05:17:20] Results do not depend on numThreads (all same) 190: [05:17:20] ------------------------------------- 190: [05:17:20] testTautomerQueries 190: [05:17:20] Pattern fingerprints for tautomersearch aren't tautomer fingerprints, ignoring... 190: [05:17:20] ------------------------------------- 190: [05:17:20] github3881 recursive smarts with rings 185/246 Test #190: substructLibraryTest ................... Passed 6.44 sec test 193 Start 193: testRGroupDecomp 193: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/testRGroupDecomp 193: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition 193: Test timeout computed to be: 7200 149: Oc1ccc2c(c1)OC[C@@H](N1CCC(Cc3ccccc3)CC1)[C@H]2O 192: ......[05:17:21] 192: 192: **** 192: Pre-condition Violation 192: RingInfo not initialized 192: Violation occurred on line 52 in file ./Code/GraphMol/RingInfo.cpp 192: Failed Expression: df_init 192: ---------- 192: Stacktrace: 192: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 192: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 192: 2# RDKit::RingInfo::numAtomRings(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 192: 3# RDKit::AtomRingQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSmilesParse.so.1 192: 4# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 192: 5# RDKit::atomCompat(RDKit::Atom const*, RDKit::Atom const*, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 6# boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::IsFeasiblePair(unsigned int, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 7# bool boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::MatchAll, std::allocator > >, std::allocator, std::allocator > > > > >(unsigned int*, unsigned int*, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 8# bool boost::vf2_all, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor, std::vector, std::allocator > >, std::allocator, std::allocator > > > > >(boost::adjacency_list const&, boost::adjacency_list const&, RDKit::detail::AtomLabelFunctor&, RDKit::detail::BondLabelFunctor&, RDKit::MolMatchFinalCheckFunctor&, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 9# RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 10# bool RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, std::vector, std::allocator > >&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 11# bool RDKit::HasSubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 12# 0x0000FFFF9A4A3E20 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 13# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 14# 0x0000FFFF9C001620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 15# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 192: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 192: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 192: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 20# 0x0000FFFF9A404200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 21# 0x0000FFFF9A40419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 22# 0x0000FFFF9A404138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 23# 0x0000FFFF9A4040C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 24# 0x0000FFFF9A404064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 192: 26# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 192: 27# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 192: 28# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 192: 29# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 30# 0x0000FFFF9BFFE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 31# _PyObject_MakeTpCall in /usr/bin/python3 192: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 33# 0x000000000054AD18 in /usr/bin/python3 192: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 35# 0x000000000063D08C in /usr/bin/python3 192: 36# 0x00000000005BE294 in /usr/bin/python3 192: 37# _PyObject_MakeTpCall in /usr/bin/python3 192: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 39# 0x000000000054AD18 in /usr/bin/python3 192: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 41# 0x000000000063D08C in /usr/bin/python3 192: 42# 0x00000000005BE294 in /usr/bin/python3 192: 43# _PyObject_MakeTpCall in /usr/bin/python3 192: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 45# 0x000000000054AD18 in /usr/bin/python3 192: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 47# 0x000000000063D08C in /usr/bin/python3 192: 48# 0x00000000005BE294 in /usr/bin/python3 192: 49# _PyObject_MakeTpCall in /usr/bin/python3 192: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 51# 0x0000000000516BB0 in /usr/bin/python3 192: 52# _PyObject_MakeTpCall in /usr/bin/python3 192: 53# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 54# PyEval_EvalCode in /usr/bin/python3 192: 55# 0x000000000065EE80 in /usr/bin/python3 192: 56# 0x000000000065A730 in /usr/bin/python3 192: 57# 0x000000000067EBA0 in /usr/bin/python3 192: 58# 0x000000000067E43C in /usr/bin/python3 192: 59# 0x000000000067E1C8 in /usr/bin/python3 192: 60# Py_RunMain in /usr/bin/python3 192: 61# Py_BytesMain in /usr/bin/python3 192: 62# 0x0000FFFF9C94255C in /usr/lib/aarch64-linux-gnu/libc.so.6 192: 63# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 192: 64# _start in /usr/bin/python3 192: ---------- 192: **** 192: 192: [05:17:21] 192: 192: **** 192: Pre-condition Violation 192: RingInfo not initialized 192: Violation occurred on line 129 in file ./Code/GraphMol/RingInfo.cpp 192: Failed Expression: df_init 192: ---------- 192: Stacktrace: 192: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 192: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 192: 2# RDKit::RingInfo::numBondRings(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 192: 3# 0x0000FFFF99F58B88 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 192: 4# Queries::EqualityQuery::Match(RDKit::Bond const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 192: 5# RDKit::bondCompat(RDKit::Bond const*, RDKit::Bond const*, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 6# boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::IsFeasiblePair(unsigned int, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 7# bool boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::MatchAll, std::allocator > >, std::allocator, std::allocator > > > > >(unsigned int*, unsigned int*, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 8# bool boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::MatchAll, std::allocator > >, std::allocator, std::allocator > > > > >(unsigned int*, unsigned int*, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 9# bool boost::vf2_all, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor, std::vector, std::allocator > >, std::allocator, std::allocator > > > > >(boost::adjacency_list const&, boost::adjacency_list const&, RDKit::detail::AtomLabelFunctor&, RDKit::detail::BondLabelFunctor&, RDKit::MolMatchFinalCheckFunctor&, std::vector, std::allocator > >, std::allocator, std::allocator > > > >&, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 10# RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSubstructMatch.so.1 192: 11# bool RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, std::vector, std::allocator > >&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 12# bool RDKit::HasSubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, bool, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 13# 0x0000FFFF9A4A3E20 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 14# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 15# 0x0000FFFF9C001620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 16# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 192: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 192: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 192: 20# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 21# 0x0000FFFF9A404200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 22# 0x0000FFFF9A40419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 23# 0x0000FFFF9A404138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 24# 0x0000FFFF9A4040C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 25# 0x0000FFFF9A404064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 192: 26# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 192: 27# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 192: 28# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 192: 29# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 192: 30# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 31# 0x0000FFFF9BFFE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 192: 32# _PyObject_MakeTpCall in /usr/bin/python3 192: 33# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 34# 0x000000000054AD18 in /usr/bin/python3 192: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 36# 0x000000000063D08C in /usr/bin/python3 192: 37# 0x00000000005BE294 in /usr/bin/python3 192: 38# _PyObject_MakeTpCall in /usr/bin/python3 192: 39# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 40# 0x000000000054AD18 in /usr/bin/python3 192: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 42# 0x000000000063D08C in /usr/bin/python3 192: 43# 0x00000000005BE294 in /usr/bin/python3 192: 44# _PyObject_MakeTpCall in /usr/bin/python3 192: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 46# 0x000000000054AD18 in /usr/bin/python3 192: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 48# 0x000000000063D08C in /usr/bin/python3 192: 49# 0x00000000005BE294 in /usr/bin/python3 192: 50# _PyObject_MakeTpCall in /usr/bin/python3 192: 51# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 52# 0x0000000000516BB0 in /usr/bin/python3 192: 53# _PyObject_MakeTpCall in /usr/bin/python3 192: 54# _PyEval_EvalFrameDefault in /usr/bin/python3 192: 55# PyEval_EvalCode in /usr/bin/python3 192: 56# 0x000000000065EE80 in /usr/bin/python3 192: 57# 0x000000000065A730 in /usr/bin/python3 192: 58# 0x000000000067EBA0 in /usr/bin/python3 192: 59# 0x000000000067E43C in /usr/bin/python3 192: 60# 0x000000000067E1C8 in /usr/bin/python3 192: 61# Py_RunMain in /usr/bin/python3 192: 62# Py_BytesMain in /usr/bin/python3 192: 63# 0x0000FFFF9C94255C in /usr/lib/aarch64-linux-gnu/libc.so.6 192: 64# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 192: 65# _start in /usr/bin/python3 192: ---------- 192: **** 192: 193: [05:17:21] Non terminal R group defined. To allow set allowNonTerminalRGroups in RGroupDecompositionParameters 193: [05:17:21] WARNING: not removing hydrogen atom with dummy atom neighbors 149: Oc1ccc2c(c1)OC[C@H](N1CCC(O)(c3ccccc3)CC1)[C@@H]2O 149: CC(=O)c1ccc2c(c1)[C@@]13CCCC[C@H]1[C@@H](C2)N(CC1CC1)CC3 150: [05:17:23] Interrupted, cancelling conformer generation 193: iterative 149: CC(=O)O[C@@H]1CC[C@@H]2CN3CCc4cc5c(cc4[C@@H]3C[C@@H]2C1)OCO5 193: bulk 180: Randomness seeded to: 3686974686 180: =============================================================================== 180: All tests passed (90 assertions in 16 test cases) 180: 186/246 Test #180: testEnumerateStereoisomers ............. Passed 22.78 sec test 194 Start 194: testRGroupDecompInternals 194: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/testRGroupDecompInternals 194: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition 194: Test timeout computed to be: 7200 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 194: [05:17:24] WARNING: not removing hydrogen atom with dummy atom neighbors 187/246 Test #194: testRGroupDecompInternals .............. Passed 0.09 sec test 195 Start 195: rgroupCatchTests 195: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/rgroupCatchTests 195: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition 195: Test timeout computed to be: 7200 195: Randomness seeded to: 2800278426 195: =============================================================================== 195: All tests passed (1479 assertions in 14 test cases) 195: 188/246 Test #195: rgroupCatchTests ....................... Passed 0.47 sec test 196 Start 196: pyRGroupDecomposition 196: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/Wrap/test_rgroups.py" 196: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap 196: Test timeout computed to be: 7200 149: COc1cc2c(cc1OC)[C@@H]1C[C@@H]3C[C@H](O)CC[C@@H]3CN1CC2 149: N#C[C@@H]1C[C@@H]2CN3CCc4cc5c(cc4[C@@H]3C[C@@H]2C[C@@H]1O)OCO5 192: ............. 192: ---------------------------------------------------------------------- 192: Ran 19 tests in 11.294s 192: 192: OK 192: Testing atom rings 192: testing bond rings 192: searching atom rings 192: searching bond rings 192: done 193: bulk, no symmetry 189/246 Test #192: pySubstructLibrary ..................... Passed 11.78 sec test 197 Start 197: determineBondsCatchTest 197: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/determineBondsCatchTest 197: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds 197: Test timeout computed to be: 7200 196: .................... 196: ---------------------------------------------------------------------- 196: Ran 20 tests in 1.666s 196: 196: OK 190/246 Test #196: pyRGroupDecomposition .................. Passed 2.12 sec test 198 Start 198: pyDetermineBonds 198: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/DetermineBonds/Wrap/testDetermineBonds.py" 198: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap 198: Test timeout computed to be: 7200 193: [05:17:27] Relabelling existing label 149: COC(=O)[C@@H]1C[C@](C)(C(=O)O)NC(=O)N1 193: Best mapping 198: .s... 198: ---------------------------------------------------------------------- 198: Ran 5 tests in 0.308s 198: 198: OK (skipped=1) 191/246 Test #198: pyDetermineBonds ....................... Passed 0.75 sec test 199 Start 199: molInterchangeTest1 199: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/molInterchangeTest1 199: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange 199: Test timeout computed to be: 7200 192/246 Test #193: testRGroupDecomp ....................... Passed 6.88 sec test 200 Start 200: molInterchangeCatchTest 200: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/molInterchangeCatchTest 200: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange 200: Test timeout computed to be: 7200 199: [05:17:27] test1: basics 199: [05:17:27] done 199: [05:17:27] test2: basic writing 199: {"rdkitjson":{"version":12},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"mol1 name","atoms":[{"impHs":3},{"impHs":3}],"bonds":[{"atoms":[0,1]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2025.03.6","cipRanks":[0,0]}]}]} 199: {"rdkitjson":{"version":12},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"test mol","atoms":[{"z":9},{"stereo":"cw"},{"z":17},{"z":8,"impHs":1},{"impHs":3}],"bonds":[{"atoms":[0,1]},{"atoms":[1,2]},{"atoms":[1,3]},{"atoms":[1,4]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2025.03.6","cipRanks":[3,1,4,2,0],"cipCodes":[[1,"S"]]}]}]} 199: {"rdkitjson":{"version":12},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"test mol","atoms":[{"impHs":1},{"impHs":1},{"impHs":1},{"impHs":1},{"impHs":1},{"impHs":1}],"bonds":[{"bo":2,"atoms":[0,1]},{"atoms":[1,2]},{"bo":2,"atoms":[2,3]},{"atoms":[3,4]},{"bo":2,"atoms":[4,5]},{"atoms":[5,0]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2025.03.6","aromaticAtoms":[0,1,2,3,4,5],"aromaticBonds":[0,1,2,3,4,5],"cipRanks":[0,0,0,0,0,0],"atomRings":[[0,5,4,3,2,1]]}]}]} 199: {"rdkitjson":{"version":12},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"test mol","atoms":[{"impHs":3},{"impHs":2},{},{},{"z":7,"impHs":2},{"impHs":1},{},{"impHs":3},{"z":7},{"impHs":1}],"bonds":[{"atoms":[0,1]},{"atoms":[1,2]},{"bo":2,"atoms":[2,3]},{"atoms":[3,4]},{"atoms":[3,5]},{"bo":2,"atoms":[5,6]},{"atoms":[6,7]},{"atoms":[6,8]},{"bo":2,"atoms":[8,9]},{"atoms":[9,2]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2025.03.6","aromaticAtoms":[2,3,5,6,8,9],"aromaticBonds":[2,4,5,7,8,9],"cipRanks":[0,2,4,5,8,3,7,1,9,6],"atomRings":[[2,9,8,6,5,3]]}]}]} 199: [05:17:27] done 199: [05:17:27] test3: writing conformers 199: {"rdkitjson":{"version":12},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"example 2","atoms":[{"z":8},{"stereo":"cw"},{"z":17,"isotope":35},{"z":9},{"z":1},{"z":1}],"bonds":[{"atoms":[0,1]},{"atoms":[1,2]},{"atoms":[1,3]},{"atoms":[0,4]},{"atoms":[1,5]}],"conformers":[{"dim":2,"coords":[[-1.1988,-0.0452],[-0.3332,0.4556],[0.166,1.322],[0.5332,-0.0438],[-2.0652,0.4542],[-0.834,1.3212]]},{"dim":3,"coords":[[0.9554,-0.3743,-0.4679],[-0.3616,-0.1311,-0.0795],[-0.5097,1.6256,0.1706],[-0.5779,-0.792,1.1042],[1.5277,0.1064,0.1628],[-1.0339,-0.4346,-0.8902]]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2025.03.6","cipCodes":[[1,"S"]]},{"name":"partialCharges","generator":"RDKit","formatVersion":10,"generatorVersion":"2025.03.6","values":[-0.352,0.273,-0.055,-0.198,0.215,0.117]}]}]} 199: [05:17:27] done 199: [05:17:27] test4: writing properties 199: {"rdkitjson":{"version":12},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"atoms":[{"impHs":3},{"impHs":3}],"bonds":[{"atoms":[0,1]}],"properties":{"foo_string":"bar","foo_int":1,"foo_double":1.2},"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2025.03.6","cipRanks":[0,0]}]}]} 199: [05:17:27] done 199: [05:17:27] test5: writing partial charges 199: {"rdkitjson":{"version":12},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"atoms":[{"impHs":3},{"z":8,"impHs":1}],"bonds":[{"atoms":[0,1]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2025.03.6","cipRanks":[0,1]},{"name":"partialCharges","generator":"RDKit","formatVersion":10,"generatorVersion":"2025.03.6","values":[0.5,-0.5]}]}]} 199: [05:17:27] testing parse options 199: [05:17:27] done 199: [05:17:27] testing github #2046: CIPRank values from JSONDataToMols are not unsigned 199: {"rdkitjson":{"version":12},"defaults":{"atom":{"z":6,"impHs":0,"chg":0,"nRad":0,"isotope":0,"stereo":"unspecified"},"bond":{"bo":1,"stereo":"unspecified"}},"molecules":[{"name":"test mol","atoms":[{"impHs":2},{"impHs":2},{"impHs":2},{"z":8},{"impHs":1,"stereo":"cw"},{"z":9}],"bonds":[{"atoms":[0,1]},{"atoms":[1,2]},{"atoms":[2,3]},{"atoms":[3,4]},{"atoms":[4,5]},{"atoms":[4,0]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2025.03.6","cipRanks":[1,0,2,4,3,5],"cipCodes":[[4,"S"]],"atomRings":[[0,1,2,3,4]]}]}]} 199: [05:17:27] done 199: [05:17:27] testing 'either' stereochemistry 199: [05:17:27] done 193/246 Test #199: molInterchangeTest1 .................... Passed 0.05 sec test 201 Start 201: pyMolInterchange 201: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/Wrap/testMolInterchange.py" 201: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap 201: Test timeout computed to be: 7200 200: Randomness seeded to: 4223746139 200: [05:17:27] unrecognized bond type 12 set to zero while writing 200: [05:17:27] unrecognized bond type 0 set to zero while writing 200: =============================================================================== 200: All tests passed (148 assertions in 8 test cases) 200: 194/246 Test #200: molInterchangeCatchTest ................ Passed 0.06 sec test 202 Start 202: testSLNParse 202: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/testSLNParse 202: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse 202: Test timeout computed to be: 7200 149: CC(=O)OC1=C(Sc2ccccc2)C[C@H]2Cc3cc4cccc(O)c4c(O)c3C(=O)[C@H]2C1 197: Randomness seeded to: 185500170 197: [05:17:27] Interrupted, cancelling determine Bond Orders 197: =============================================================================== 197: All tests passed (5184 assertions in 10 test cases) 197: 195/246 Test #197: determineBondsCatchTest ................ Passed 1.05 sec test 203 Start 203: pySLNParse 203: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/Wrap/testSLN.py" 203: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/Wrap 203: Test timeout computed to be: 7200 202: Atoms: 202: 0 6 C chg: 1 deg: 5 exp: N/A imp: 0 hyb: 202: 1 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 202: 2 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 202: 3 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 202: 4 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 202: 5 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 202: Bonds: 202: 0 0->1 order: 1 202: 1 0->2 order: 1 202: 2 0->3 order: 1 202: 3 0->4 order: 1 202: 4 0->5 order: 1 202: [05:17:27] SLN Parse Error: syntax error while parsing: CH4[I=13] 202: [05:17:27] Failed parsing SLN 'CH4[I=13]' 202: [05:17:27] SLN Parser error: Atom ID 1 appears *after* its ring closure. 202: [05:17:27] SLN Parser error: Ring closure 1 does not have a corresponding opener. 202: [05:17:27] SLN Parse Error: syntax error while parsing: CH2(C@1H2)CH2(CH2CH2C[1]H2) 202: [05:17:27] Failed parsing SLN 'CH2(C@1H2)CH2(CH2CH2C[1]H2)' 202: [05:17:27] SLN Parse Error: syntax error while parsing: CH2(CH2[1])CH2(CH2CH2CH2@1) 202: [05:17:27] Failed parsing SLN 'CH2(CH2[1])CH2(CH2CH2CH2@1)' 202: [05:17:27] SLN Parse Error: syntax error while parsing: CH4 fff 202: [05:17:27] Failed parsing SLN 'CH4 fff' 202: [05:17:27] SLN Parse Error: syntax error while parsing: C[charge=+1] foo 202: [05:17:27] Failed parsing SLN 'C[charge=+1] foo' 202: [05:17:27] Query property 'is' ignored on non-query atom 202: [05:17:27] Query property 'is' ignored on non-query atom 196/246 Test #202: testSLNParse ........................... Passed 0.05 sec test 204 Start 204: pyGraphMolWrap 204: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rough_test.py" 204: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 204: Test timeout computed to be: 7200 201: .. 201: ---------------------------------------------------------------------- 201: Ran 2 tests in 0.018s 201: 201: OK 203: .. 203: ---------------------------------------------------------------------- 203: Ran 2 tests in 0.010s 203: 203: OK 197/246 Test #201: pyMolInterchange ....................... Passed 0.44 sec test 205 Start 205: pyTestConformerWrap 205: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testConformer.py" 205: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 205: Test timeout computed to be: 7200 198/246 Test #203: pySLNParse ............................. Passed 0.47 sec test 206 Start 206: pyTestTrajectory 206: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testTrajectory.py" 206: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 206: Test timeout computed to be: 7200 204: ..............[05:17:28] SMARTS Parse Error: syntax error while parsing: fiib 204: [05:17:28] SMARTS Parse Error: check for mistakes around position 1: 204: [05:17:28] fiib 204: [05:17:28] ^ 204: [05:17:28] SMARTS Parse Error: Failed parsing SMARTS 'fiib' for input: 'fiib' 204: ....[05:17:28] ERROR: Problems encountered parsing data fields 204: [05:17:28] ERROR: moving to the beginning of the next molecule 204: [05:17:28] ERROR: Problems encountered parsing data fields 204: [05:17:28] ERROR: moving to the beginning of the next molecule 204: [05:17:28] Spurious data before the first property will be ignored 204: [05:17:28] Property will be truncated after the first blank line 204: [05:17:28] Property will be truncated after the first blank line 204: [05:17:28] Property will be truncated after the first blank line 204: [05:17:28] ERROR: Problems encountered parsing data fields 204: [05:17:28] ERROR: moving to the beginning of the next molecule 204: [05:17:28] ERROR: Problems encountered parsing data fields 204: [05:17:28] ERROR: moving to the beginning of the next molecule 204: [05:17:28] Spurious data before the first property will be ignored 204: [05:17:28] Property will be truncated after the first blank line 204: [05:17:28] Property will be truncated after the first blank line 204: [05:17:28] Property will be truncated after the first blank line 204: [05:17:28] ERROR: Problems encountered parsing data fields 204: [05:17:28] ERROR: moving to the beginning of the next molecule 204: [05:17:28] Property will be truncated after the first blank line 204: [05:17:28] ERROR: Problems encountered parsing data fields 204: [05:17:28] ERROR: moving to the beginning of the next molecule 204: [05:17:28] Property will be truncated after the first blank line 204: .[05:17:28] SMILES Parse Error: syntax error while parsing: fail 204: [05:17:28] SMILES Parse Error: check for mistakes around position 1: 204: [05:17:28] fail 204: [05:17:28] ^ 204: [05:17:28] SMILES Parse Error: Failed parsing SMILES 'fail' for input: 'fail' 204: [05:17:28] ERROR: Smiles parse error on line 2 204: [05:17:28] ERROR: Cannot create molecule from : 'fail' 204: >>> This may result in an infinite loop. It should finish almost instantly 204: <<< OK, it finished. 204: ............[05:17:28] Explicit valence for atom # 1 C, 5, is greater than permitted 205: ...... 205: ---------------------------------------------------------------------- 205: Ran 6 tests in 0.018s 205: 205: OK 204: ......[05:17:28] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 204: [05:17:28] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 204: [05:17:28] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 204: [05:17:28] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 206: [05:17:28] 206: 206: **** 204: .........[05:17:28] non-ring atom 0 marked aromatic 204: [05:17:28] non-ring atom 0 marked aromatic 204: [05:17:28] 204: 204: **** 206: Pre-condition Violation 206: from must be < size() 206: Violation occurred on line 91 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: from < static_cast(size()) 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 204: Range Error 204: idx 204: Violation occurred on line 209 in file ./Code/GraphMol/ROMol.cpp 204: Failed Expression: 12 < 6 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 4# 0x0000FFFF91847D34 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 28# _PyObject_MakeTpCall in /usr/bin/python3 204: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 30# 0x000000000054AD18 in /usr/bin/python3 204: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 32# 0x000000000063D08C in /usr/bin/python3 204: 33# 0x00000000005BE294 in /usr/bin/python3 204: 34# _PyObject_MakeTpCall in /usr/bin/python3 204: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 36# 0x000000000054AD18 in /usr/bin/python3 204: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 38# 0x000000000063D08C in /usr/bin/python3 204: 39# 0x00000000005BE294 in /usr/bin/python3 204: 40# _PyObject_MakeTpCall in /usr/bin/python3 204: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 42# 0x000000000054AD18 in /usr/bin/python3 204: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 44# 0x000000000063D08C in /usr/bin/python3 204: 45# 0x00000000005BE294 in /usr/bin/python3 204: 46# _PyObject_MakeTpCall in /usr/bin/python3 204: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 48# 0x0000000000516BB0 in /usr/bin/python3 204: 49# _PyObject_MakeTpCall in /usr/bin/python3 204: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 51# PyEval_EvalCode in /usr/bin/python3 204: 52# 0x000000000065EE80 in /usr/bin/python3 204: 53# 0x000000000065A730 in /usr/bin/python3 204: 54# 0x000000000067EBA0 in /usr/bin/python3 204: 55# 0x000000000067E43C in /usr/bin/python3 204: 56# 0x000000000067E1C8 in /usr/bin/python3 204: 57# Py_RunMain in /usr/bin/python3 204: 58# Py_BytesMain in /usr/bin/python3 204: 59# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 61# _start in /usr/bin/python3 204: ---------- 206: **** 206: 206: .[05:17:28] 206: 206: **** 206: Pre-condition Violation 206: from must be < size() 206: Violation occurred on line 91 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: from < static_cast(size()) 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 206: **** 206: 204: **** 204: 204: [05:17:28] non-ring atom 0 marked aromatic 204: [05:17:28] non-ring atom 0 marked aromatic 204: [05:17:28] 204: 204: **** 204: Range Error 204: idx 204: Violation occurred on line 209 in file ./Code/GraphMol/ROMol.cpp 204: Failed Expression: 12 < 6 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 4# 0x0000FFFF91847D34 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 28# _PyObject_MakeTpCall in /usr/bin/python3 204: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 30# 0x000000000054AD18 in /usr/bin/python3 204: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 32# 0x000000000063D08C in /usr/bin/python3 204: 33# 0x00000000005BE294 in /usr/bin/python3 204: 34# _PyObject_MakeTpCall in /usr/bin/python3 204: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 36# 0x000000000054AD18 in /usr/bin/python3 204: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 38# 0x000000000063D08C in /usr/bin/python3 204: 39# 0x00000000005BE294 in /usr/bin/python3 204: 40# _PyObject_MakeTpCall in /usr/bin/python3 204: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 42# 0x000000000054AD18 in /usr/bin/python3 204: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 44# 0x000000000063D08C in /usr/bin/python3 204: 45# 0x00000000005BE294 in /usr/bin/python3 204: 46# _PyObject_MakeTpCall in /usr/bin/python3 204: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 48# 0x0000000000516BB0 in /usr/bin/python3 204: 49# _PyObject_MakeTpCall in /usr/bin/python3 204: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 51# PyEval_EvalCode in /usr/bin/python3 204: 52# 0x000000000065EE80 in /usr/bin/python3 204: 53# 0x000000000065A730 in /usr/bin/python3 204: 54# 0x000000000067EBA0 in /usr/bin/python3 204: 55# 0x000000000067E43C in /usr/bin/python3 204: 56# 0x000000000067E1C8 in /usr/bin/python3 204: 57# Py_RunMain in /usr/bin/python3 204: 58# Py_BytesMain in /usr/bin/python3 204: 59# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 61# _start in /usr/bin/python3 204: ---------- 204: **** 204: 199/246 Test #205: pyTestConformerWrap .................... Passed 0.45 sec test 207 Start 207: pyTestSGroups 207: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testSGroups.py" 207: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 207: Test timeout computed to be: 7200 204: ...............[05:17:28] WARNING: the onlyHeavy argument to mol.GetNumAtoms() has been deprecated. Please use the onlyExplicit argument instead or mol.GetNumHeavyAtoms() if you want the heavy atom count. 204: [05:17:28] WARNING: the onlyHeavy argument to mol.GetNumAtoms() has been deprecated. Please use the onlyExplicit argument instead or mol.GetNumHeavyAtoms() if you want the heavy atom count. 149: Nc1ncnc2c1ncn2[C@@H]1C[C@H](CO)[C@@H](O)C1 204: ..............[05:17:28] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 204: [05:17:28] Explicit valence for atom # 1 C, 5, is greater than permitted 206: .[05:17:29] 206: 206: **** 206: Range Error 206: snapshotNum 206: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: 0 < 0 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::caller_py_function_impl, boost::mpl::vector3 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 21# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 23# _PyObject_MakeTpCall in /usr/bin/python3 206: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 25# 0x000000000054AD18 in /usr/bin/python3 206: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 27# 0x000000000063D08C in /usr/bin/python3 206: 28# 0x00000000005BE294 in /usr/bin/python3 206: 29# _PyObject_MakeTpCall in /usr/bin/python3 206: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 31# 0x000000000054AD18 in /usr/bin/python3 206: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 33# 0x000000000063D08C in /usr/bin/python3 206: 34# 0x00000000005BE294 in /usr/bin/python3 206: 35# _PyObject_MakeTpCall in /usr/bin/python3 206: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 37# 0x000000000054AD18 in /usr/bin/python3 206: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 39# 0x000000000063D08C in /usr/bin/python3 206: 40# 0x00000000005BE294 in /usr/bin/python3 206: 41# _PyObject_MakeTpCall in /usr/bin/python3 206: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 43# 0x0000000000516BB0 in /usr/bin/python3 206: 44# _PyObject_MakeTpCall in /usr/bin/python3 206: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 46# PyEval_EvalCode in /usr/bin/python3 206: 47# 0x000000000065EE80 in /usr/bin/python3 206: 48# 0x000000000065A730 in /usr/bin/python3 206: 49# 0x000000000067EBA0 in /usr/bin/python3 206: 50# 0x000000000067E43C in /usr/bin/python3 206: 51# 0x000000000067E1C8 in /usr/bin/python3 206: 52# Py_RunMain in /usr/bin/python3 206: 53# Py_BytesMain in /usr/bin/python3 206: 54# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 56# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: .[05:17:29] 206: 206: **** 206: Pre-condition Violation 206: The trajectory must have dimension == 3 206: Violation occurred on line 113 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: traj.dimension() == 3 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::readAmberTrajectory(std::__cxx11::basic_string, std::allocator > const&, RDKit::Trajectory&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl, std::allocator > const&, RDKit::Trajectory&), boost::python::default_call_policies, boost::mpl::vector3, std::allocator > const&, RDKit::Trajectory&> > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: ..[05:17:29] 206: 206: **** 206: Pre-condition Violation 206: The trajectory must have dimension == 3 206: Violation occurred on line 154 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: traj.dimension() == 3 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::readGromosTrajectory(std::__cxx11::basic_string, std::allocator > const&, RDKit::Trajectory&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl, std::allocator > const&, RDKit::Trajectory&), boost::python::default_call_policies, boost::mpl::vector3, std::allocator > const&, RDKit::Trajectory&> > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: .[05:17:29] 206: 206: **** 206: Pre-condition Violation 206: d_pos must not be NULL 206: Violation occurred on line 23 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: d_pos 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: [05:17:29] 206: 206: **** 206: Pre-condition Violation 206: d_trajectory must not be NULL 206: Violation occurred on line 24 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: d_trajectory 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: .[05:17:29] 206: 206: **** 206: Range Error 206: snapshotNum 206: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: 5 < 5 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::caller_py_function_impl, boost::mpl::vector3 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 21# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 23# _PyObject_MakeTpCall in /usr/bin/python3 206: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 25# 0x000000000054AD18 in /usr/bin/python3 206: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 27# 0x000000000063D08C in /usr/bin/python3 206: 28# 0x00000000005BE294 in /usr/bin/python3 206: 29# _PyObject_MakeTpCall in /usr/bin/python3 206: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 31# 0x000000000054AD18 in /usr/bin/python3 206: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 33# 0x000000000063D08C in /usr/bin/python3 206: 34# 0x00000000005BE294 in /usr/bin/python3 206: 35# _PyObject_MakeTpCall in /usr/bin/python3 206: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 37# 0x000000000054AD18 in /usr/bin/python3 206: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 39# 0x000000000063D08C in /usr/bin/python3 206: 40# 0x00000000005BE294 in /usr/bin/python3 206: 41# _PyObject_MakeTpCall in /usr/bin/python3 206: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 43# 0x0000000000516BB0 in /usr/bin/python3 206: 44# _PyObject_MakeTpCall in /usr/bin/python3 206: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 46# PyEval_EvalCode in /usr/bin/python3 206: 47# 0x000000000065EE80 in /usr/bin/python3 206: 48# 0x000000000065A730 in /usr/bin/python3 206: 49# 0x000000000067EBA0 in /usr/bin/python3 206: 50# 0x000000000067E43C in /usr/bin/python3 206: 51# 0x000000000067E1C8 in /usr/bin/python3 206: 52# Py_RunMain in /usr/bin/python3 206: 53# Py_BytesMain in /usr/bin/python3 206: 54# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 56# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: [05:17:29] 206: 206: **** 206: Range Error 206: pointNum 206: Violation occurred on line 27 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: 10 < 10 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: .[05:17:29] 206: 206: **** 206: Range Error 206: snapshotNum 206: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: 5 < 5 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::caller_py_function_impl, boost::mpl::vector3 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 21# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 23# _PyObject_MakeTpCall in /usr/bin/python3 206: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 25# 0x000000000054AD18 in /usr/bin/python3 206: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 27# 0x000000000063D08C in /usr/bin/python3 206: 28# 0x00000000005BE294 in /usr/bin/python3 206: 29# _PyObject_MakeTpCall in /usr/bin/python3 206: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 31# 0x000000000054AD18 in /usr/bin/python3 206: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 33# 0x000000000063D08C in /usr/bin/python3 206: 34# 0x00000000005BE294 in /usr/bin/python3 206: 35# _PyObject_MakeTpCall in /usr/bin/python3 206: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 37# 0x000000000054AD18 in /usr/bin/python3 206: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 39# 0x000000000063D08C in /usr/bin/python3 206: 40# 0x00000000005BE294 in /usr/bin/python3 206: 41# _PyObject_MakeTpCall in /usr/bin/python3 206: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 43# 0x0000000000516BB0 in /usr/bin/python3 206: 44# _PyObject_MakeTpCall in /usr/bin/python3 206: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 46# PyEval_EvalCode in /usr/bin/python3 206: 47# 0x000000000065EE80 in /usr/bin/python3 206: 48# 0x000000000065A730 in /usr/bin/python3 206: 49# 0x000000000067EBA0 in /usr/bin/python3 206: 50# 0x000000000067E43C in /usr/bin/python3 206: 51# 0x000000000067E1C8 in /usr/bin/python3 206: 52# Py_RunMain in /usr/bin/python3 206: 53# Py_BytesMain in /usr/bin/python3 206: 54# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 56# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: [05:17:29] 206: 206: **** 206: Pre-condition Violation 206: d_dimension must be == 2 206: Violation occurred on line 25 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: d_trajectory->dimension() == 2 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: [05:17:29] 206: 206: **** 206: Pre-condition Violation 206: d_dimension must be == 2 206: Violation occurred on line 25 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 206: Failed Expression: d_trajectory->dimension() == 2 206: ---------- 206: Stacktrace: 206: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 206: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 206: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 206: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 5# 0x0000FFFF9CFC1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 206: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 206: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 11# 0x0000FFFF9B374200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 12# 0x0000FFFF9B37419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 13# 0x0000FFFF9B374138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 14# 0x0000FFFF9B3740C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 15# 0x0000FFFF9B374064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 206: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 17# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 18# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 19# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 206: 20# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 21# 0x0000FFFF9CFBE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 206: 22# _PyObject_MakeTpCall in /usr/bin/python3 206: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 24# 0x000000000054AD18 in /usr/bin/python3 206: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 26# 0x000000000063D08C in /usr/bin/python3 206: 27# 0x00000000005BE294 in /usr/bin/python3 206: 28# _PyObject_MakeTpCall in /usr/bin/python3 206: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 30# 0x000000000054AD18 in /usr/bin/python3 206: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 32# 0x000000000063D08C in /usr/bin/python3 206: 33# 0x00000000005BE294 in /usr/bin/python3 206: 34# _PyObject_MakeTpCall in /usr/bin/python3 206: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 36# 0x000000000054AD18 in /usr/bin/python3 206: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 38# 0x000000000063D08C in /usr/bin/python3 206: 39# 0x00000000005BE294 in /usr/bin/python3 206: 40# _PyObject_MakeTpCall in /usr/bin/python3 206: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 42# 0x0000000000516BB0 in /usr/bin/python3 206: 43# _PyObject_MakeTpCall in /usr/bin/python3 206: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 206: 45# PyEval_EvalCode in /usr/bin/python3 206: 46# 0x000000000065EE80 in /usr/bin/python3 206: 47# 0x000000000065A730 in /usr/bin/python3 206: 48# 0x000000000067EBA0 in /usr/bin/python3 206: 49# 0x000000000067E43C in /usr/bin/python3 206: 50# 0x000000000067E1C8 in /usr/bin/python3 206: 51# Py_RunMain in /usr/bin/python3 206: 52# Py_BytesMain in /usr/bin/python3 206: 53# 0x0000FFFF9D80255C in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 54# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 206: 55# _start in /usr/bin/python3 206: ---------- 206: **** 206: 206: . 206: ---------------------------------------------------------------------- 206: Ran 9 tests in 0.329s 206: 206: OK 206: Testing Trajectory wrapper 149: C[C@H](C(N)=O)N1CC[C@@]23CCCC[C@@H]2[C@@H]1Cc1ccc(OCc2cccc(F)c2)cc13 200/246 Test #206: pyTestTrajectory ....................... Passed 0.76 sec test 208 Start 208: pyTestSCSR 208: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testSCSR.py" 208: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 208: Test timeout computed to be: 7200 207: ............. 207: ---------------------------------------------------------------------- 207: Ran 13 tests in 0.028s 207: 207: OK 207: Testing SubstanceGroups wrapper 201/246 Test #207: pyTestSGroups .......................... Passed 0.49 sec test 209 Start 209: pyTestThreads 209: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testThreads.py" 209: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 209: Test timeout computed to be: 7200 204: ............................[05:17:29] unable to set wavy bonds for double bonds: 3 208: ... 208: ---------------------------------------------------------------------- 208: Ran 3 tests in 0.031s 208: 208: OK 204: .............[05:17:29] 204: 204: **** 204: Range Error 204: idx 204: Violation occurred on line 209 in file ./Code/GraphMol/ROMol.cpp 204: Failed Expression: 6 < 5 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 28# _PyObject_MakeTpCall in /usr/bin/python3 204: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 30# 0x000000000054AD18 in /usr/bin/python3 204: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 32# 0x000000000063D08C in /usr/bin/python3 204: 33# 0x00000000005BE294 in /usr/bin/python3 204: 34# _PyObject_MakeTpCall in /usr/bin/python3 204: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 36# 0x000000000054AD18 in /usr/bin/python3 204: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 38# 0x000000000063D08C in /usr/bin/python3 204: 39# 0x00000000005BE294 in /usr/bin/python3 204: 40# _PyObject_MakeTpCall in /usr/bin/python3 204: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 42# 0x000000000054AD18 in /usr/bin/python3 204: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 44# 0x000000000063D08C in /usr/bin/python3 204: 45# 0x00000000005BE294 in /usr/bin/python3 204: 46# _PyObject_MakeTpCall in /usr/bin/python3 204: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 48# 0x0000000000516BB0 in /usr/bin/python3 204: 49# _PyObject_MakeTpCall in /usr/bin/python3 204: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 51# PyEval_EvalCode in /usr/bin/python3 204: 52# 0x000000000065EE80 in /usr/bin/python3 204: 53# 0x000000000065A730 in /usr/bin/python3 204: 54# 0x000000000067EBA0 in /usr/bin/python3 204: 55# 0x000000000067E43C in /usr/bin/python3 204: 56# 0x000000000067E1C8 in /usr/bin/python3 204: 57# Py_RunMain in /usr/bin/python3 204: 58# Py_BytesMain in /usr/bin/python3 204: 59# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 61# _start in /usr/bin/python3 204: ---------- 204: **** 204: 202/246 Test #208: pyTestSCSR ............................. Passed 0.46 sec test 210 Start 210: pyTestMultithreadedMolSupplier 210: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testMultithreadedMolSupplier.py" 210: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 210: Test timeout computed to be: 7200 210: .s... 210: ---------------------------------------------------------------------- 210: Ran 5 tests in 0.166s 210: 210: OK (skipped=1) 203/246 Test #210: pyTestMultithreadedMolSupplier ......... Passed 0.65 sec test 211 Start 211: pyTestPropertyLists 211: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testPropertyLists.py" 211: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 211: Test timeout computed to be: 7200 211: [05:17:30] Value [?] for property atom.iprop.PartiallyMissingInt of atom 0 can not be parsed. Ignoring it. 211: [05:17:30] Value ? for property atom.iprop.PartiallyMissingInt of atom 3 can not be parsed. Ignoring it. 211: [05:17:30] Value $$$$ for property atom.iprop.PartiallyMissingInt of atom 4 can not be parsed. Ignoring it. 211: .[05:17:30] Value [?] for property atom.iprop.PartiallyMissingInt of atom 0 can not be parsed. Ignoring it. 211: [05:17:30] Value ? for property atom.iprop.PartiallyMissingInt of atom 3 can not be parsed. Ignoring it. 211: [05:17:30] Value $$$$ for property atom.iprop.PartiallyMissingInt of atom 4 can not be parsed. Ignoring it. 211: ...[05:17:30] Value [?] for property atom.iprop.PartiallyMissingInt of atom 0 can not be parsed. Ignoring it. 211: [05:17:30] Value ? for property atom.iprop.PartiallyMissingInt of atom 3 can not be parsed. Ignoring it. 211: [05:17:30] Value $$$$ for property atom.iprop.PartiallyMissingInt of atom 4 can not be parsed. Ignoring it. 211: . 211: ---------------------------------------------------------------------- 211: Ran 5 tests in 0.015s 211: 211: OK 204/246 Test #211: pyTestPropertyLists .................... Passed 0.41 sec test 212 Start 212: pyCDXMLTest 212: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/test_cdxml.py" 212: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 212: Test timeout computed to be: 7200 149: CN1C(=O)CC[C@@]2(C)C1=CCc1cc(Cl)ccc12 212: .. 212: ---------------------------------------------------------------------- 212: Ran 2 tests in 0.001s 212: 212: OK 149: Cc1nc(COc2ccc3c(c2)[C@@H](O)[C@@H](Cc2cccnc2)CO3)ccc1[N+](=O)[O-] 205/246 Test #212: pyCDXMLTest ............................ Passed 0.26 sec test 213 Start 213: molStandardizeTest 213: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeTest 213: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 213: Test timeout computed to be: 7200 204: .....................[05:17:31] Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:31] Explicit valence for atom # 6 F, 2, is greater than permitted 204: [05:17:31] Can't kekulize mol. Unkekulized atoms: 3 4 5 204: ..smi: CC1=C(n2cccc2[C@H](C)Cl)C(C)CCC1 |(2.679,0.4142,;1.3509,1.181,;0.0229,0.4141,;0.0229,-1.1195,;1.2645,-2.0302,;0.7901,-3.4813,;-0.7446,-3.4813,;-1.219,-2.0302,;-2.679,-1.5609,;-3.0039,-0.0556,;-3.8202,-2.595,;-1.3054,1.1809,;-2.6335,0.4141,;-1.3054,2.7145,;0.0229,3.4813,;1.3509,2.7146,),wD:8.9,2.11,a:2,&1:8| 204: CC/C=C/C(/C=C/CC)=C(CC)CO 204: CC/C=C\C(/C=C/CC)=C(CC)CO 204: CC/C=C\C(/C=C/CC)=C(CC)CO 204: CC/C=C\C(/C=C\CC)=C(CC)CO 204: CC/C=C/C(/C=C/CC)=C(CC)CO 204: 2 STEREOE 204: 5 STEREOE 204: CC/C=C\C(/C=C\CC)=C(CC)CO 204: 2 STEREOZ 204: 5 STEREOZ 204: CC/C=C\C(/C=C/CC)=C(CC)CO 204: 2 STEREOZ 204: 5 STEREOE 204: 8 STEREOANY 206/246 Test #209: pyTestThreads .......................... Passed 2.91 sec test 214 Start 214: molNormalizeTest 214: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molNormalizeTest 214: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 214: Test timeout computed to be: 7200 214: [05:17:32] Can't kekulize mol. Unkekulized atoms: 3 7 8 9 207/246 Test #213: molStandardizeTest ..................... Passed 1.35 sec test 215 Start 215: molValidateTest 215: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molValidateTest 215: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 215: Test timeout computed to be: 7200 214: [05:17:32] Initializing Normalizer 214: [05:17:32] Running Normalizer 214: [05:17:32] Rule applied: BrokenazidetoN=N+=N- 215: ERROR: [FeaturesValidation] Query atom 0 is not allowed 215: ERROR: [FeaturesValidation] Dummy atom 0 is not allowed 215: ERROR: [FeaturesValidation] Query bond 0 is not allowed 215: ERROR: [FeaturesValidation] Bond 0 of aromatic type is not allowed 215: ERROR: [FeaturesValidation] Bond 1 of aromatic type is not allowed 215: ERROR: [FeaturesValidation] Bond 2 of aromatic type is not allowed 215: ERROR: [FeaturesValidation] Bond 3 of aromatic type is not allowed 215: ERROR: [FeaturesValidation] Bond 5 of aromatic type is not allowed 215: ERROR: [FeaturesValidation] Bond 6 of aromatic type is not allowed 215: ERROR: [FeaturesValidation] Bond 2 of dative type is not allowed 215: ERROR: [FeaturesValidation] Bond 3 of dative type is not allowed 215: ERROR: [FeaturesValidation] Atom 2 with alias 'CF3' is not allowed 215: ERROR: [FeaturesValidation] Enhanced stereochemistry features are not allowed 215: ERROR: [StereoValidation] Atom 3 has both unknown and wedged/dashed stereo bonds. 215: here 215: ERROR: [StereoValidation] Bond 3 has assigned stereo type, but unexpected bond order. 215: there 215: ERROR: [StereoValidation] Atom 0 has stereo bonds, but less than 3 explicit substituents. 214: [05:17:32] Initializing Normalizer 214: [05:17:32] Running Normalizer 214: [05:17:32] Initializing Normalizer 214: [05:17:32] Running Normalizer 208/246 Test #215: molValidateTest ........................ Passed 0.07 sec test 216 Start 216: molChargeTest 216: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molChargeTest 216: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 216: Test timeout computed to be: 7200 209/246 Test #214: molNormalizeTest ....................... Passed 0.19 sec test 217 Start 217: molTautomerTest 217: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molTautomerTest 217: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 217: Test timeout computed to be: 7200 210/246 Test #216: molChargeTest .......................... Passed 0.11 sec test 218 Start 218: molStandardizeSmallTest 218: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeSmallTest 218: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 218: Test timeout computed to be: 7200 211/246 Test #218: molStandardizeSmallTest ................ Passed 0.06 sec test 219 Start 219: molFragmentTest 219: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molFragmentTest 219: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 219: Test timeout computed to be: 7200 219: [05:17:32] SMARTS Parse Error: syntax error while parsing: [Cl 219: [05:17:32] SMARTS Parse Error: check for mistakes around position 3: 219: [05:17:32] [Cl 219: [05:17:32] ~~^ 219: [05:17:32] SMARTS Parse Error: Failed parsing SMARTS '[Cl' for input: '[Cl' 212/246 Test #219: molFragmentTest ........................ Passed 0.08 sec test 220 Start 220: molStandardizeCatchTest 220: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeCatchTest 220: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 220: Test timeout computed to be: 7200 220: Randomness seeded to: 2341117675 220: * - * - * - * m1 217: [05:17:32] Tautomer enumeration stopped at 292 tautomers: max transforms reached 220: * - * - * - * m2 220: * - * - * - * m1 220: * - * - * - * m2 220: [05:17:33] Can't kekulize mol. Unkekulized atoms: 3 7 220: [05:17:33] Can't kekulize mol. Unkekulized atoms: 3 8 220: [05:17:33] Can't kekulize mol. Unkekulized atoms: 2 3 4 217: [05:17:33] Tautomer enumeration stopped at 292 tautomers: max transforms reached 217: [05:17:33] Tautomer enumeration stopped at 50 tautomers: max tautomers reached 204: ..................[05:17:33] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 217: [05:17:34] Tautomer enumeration stopped at 60 tautomers: canceled 217: Enumeration was canceled due to timeout (50 ms) 217: 375 217: Enumeration has completed 217: [05:17:34] Tautomer enumeration stopped at 85 tautomers: canceled 217: CN=c1cc[nH]cn1 217: CN=c1ccnc[nH]1 217: CNc1ccncn1 217: res: CNc1ccncn1 217: CN=c1cccc[nH]1 217: CNc1ccccn1 217: res: CNc1ccccn1 213/246 Test #217: molTautomerTest ........................ Passed 3.49 sec test 221 Start 221: molStandardizePipelineTest 221: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizePipelineTest 221: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 221: Test timeout computed to be: 7200 221: Randomness seeded to: 2686436341 221: 1 Counts line too short: '' on line4 221: 1 Could not instantiate a valid molecule from input 221: 8 Molecule has no atoms 221: [05:17:35] Explicit valence for atom # 1 N, 4, is greater than permitted 221: [05:17:35] Explicit valence for atom # 1 N, 4, is greater than permitted 221: 8 Explicit valence for atom # 1 N, 4, is greater than permitted 221: 128 An error occurred while preparing the molecule for standardization. 221: 8 The molecule contains an unknown isotope: 3C 221: 4 Query atom 0 is not allowed 221: 4 Bond 0 of aromatic type is not allowed 221: 4 Bond 1 of aromatic type is not allowed 221: 4 Bond 2 of aromatic type is not allowed 221: 4 Bond 3 of aromatic type is not allowed 221: 4 Bond 5 of aromatic type is not allowed 221: 4 Bond 6 of aromatic type is not allowed 221: 4 Bond 2 of dative type is not allowed 221: 4 Bond 3 of dative type is not allowed 221: 4 Enhanced stereochemistry features are not allowed 221: 8 The radical at atom 0 is not allowed 221: [05:17:35] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 221: 16 The molecule includes non-null Z coordinates 221: 32 Atom 0 too close to bond 2 221: 32 The length of bond 3 between atoms 0 and 3 exceeds a configured limit 221: 64 Atom 0 has 3 explicit substituents and multiple stereo bonds 221: 64 Atom 0 has adjacent stereo bonds with like orientation 221: [05:17:35] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 221: 16 The molecule includes non-null Z coordinates 221: 64 Atom 0 has adjacent stereo bonds with like orientation 221: 32 The length of bond 16 between atoms 16 and 1 exceeds a configured limit 221: 8388608 One or more metal atoms were disconnected. 221: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 221: 67108864 The protonation state was adjusted. 221: 16777216 The representation of some functional groups was adjusted. 221: 67108864 The protonation state was adjusted. 221: 16777216 The representation of some functional groups was adjusted. 221: 67108864 The protonation state was adjusted. 221: 16777216 The representation of some functional groups was adjusted. 221: 16777216 The representation of some functional groups was adjusted. 221: 67108864 The protonation state was adjusted. 221: 16777216 The representation of some functional groups was adjusted. 221: 67108864 The protonation state was adjusted. 221: 16777216 The representation of some functional groups was adjusted. 221: 67108864 The protonation state was adjusted. 221: 16777216 The representation of some functional groups was adjusted. 221: 67108864 The protonation state was adjusted. 221: 8388608 One or more metal atoms were disconnected. 221: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 221: 67108864 The protonation state was adjusted. 221: 8388608 One or more metal atoms were disconnected. 221: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 221: 67108864 The protonation state was adjusted. 221: 8388608 One or more metal atoms were disconnected. 221: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 221: 67108864 The protonation state was adjusted. 221: 8388608 One or more metal atoms were disconnected. 221: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 221: 67108864 The protonation state was adjusted. 221: 8388608 One or more metal atoms were disconnected. 221: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 221: 67108864 The protonation state was adjusted. 221: 16777216 The "wavy" style of bond 4 was removed 221: 16777216 Double bond 1 was assigned an undefined/unknown stereochemical configuration 221: 16777216 The "wavy" style of bond 2 was removed 221: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 221: 16777216 The "wavy" style of bond 1 was removed 221: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 221: 16777216 The "wavy" style of bond 1 was removed 221: 16777216 The "wavy" style of bond 4 was removed 221: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 221: 16777216 The "wavy" style of bond 3 was removed 221: 16777216 Double bond 1 was assigned an undefined/unknown stereochemical configuration 221: 16777216 The "wavy" style of bond 2 was removed 221: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 221: 16777216 The "wavy" style of bond 1 was removed 221: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 221: 16777216 The "wavy" style of bond 1 was removed 221: 16777216 The "wavy" style of bond 4 was removed 221: 16777216 The "wavy" style of bond 3 was removed 221: 16777216 The representation of some functional groups was adjusted. 221: [05:17:36] Can't kekulize mol. Unkekulized atoms: 2 3 5 221: =============================================================================== 221: All tests passed (318 assertions in 5 test cases) 221: 214/246 Test #221: molStandardizePipelineTest ............. Passed 0.20 sec test 222 Start 222: pyMolStandardize 222: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/testMolStandardize.py" 222: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap 222: Test timeout computed to be: 7200 222: .....[05:17:36] Tautomer enumeration stopped at 292 tautomers: max transforms reached 222: [05:17:37] Tautomer enumeration stopped at 50 tautomers: max tautomers reached 222: .[05:17:37] Tautomer enumeration stopped at 41 tautomers: canceled 222: Enumeration was canceled due to timeout (50 ms) 222: Enumeration has completed 149: [05:17:38] Molecule does not have explicit Hs. Consider calling AddHs() 222: [05:17:38] Tautomer enumeration stopped at 91 tautomers: canceled 149: [05:17:31] --------------------------------- 149: [05:17:31] test github issue 696: Bad 1-4 bounds matrix elements in highly constrained system 149: [05:17:31] --------------------------------- 149: [05:17:31] More ChEMBL molecules failing bounds smoothing. 149: [05:17:31] --------------------------------- 149: [05:17:31] ugly conformations can be generated for highly constrained ring systems. 149: [05:17:31] --------------------------------- 149: [05:17:31] test embed parameters structure. 149: [05:17:31] --------------------------------- 149: [05:17:31] test github 1227: Hs being used in RMSD filtering. 149: [05:17:31] --------------------------------- 149: [05:17:31] Failure to embed larger aromatic rings. 149: [05:17:33] --------------------------------- 149: [05:17:33] Deterministic with large random seeds 149: [05:17:36] --------------------------------- 149: [05:17:36] Github #1990: seg fault after RemoveHs 149: [05:17:36] --------------------------------- 149: [05:17:36] Github #2246: Use coordMap when starting embedding from random coords 149: [05:17:38] --------------------------------- 149: [05:17:38] Providing a distance bounds matrix. 149: [05:17:38] --------------------------------- 149: [05:17:38] Disabling fragmentation. 149: [05:17:38] --------------------------------- 149: [05:17:38] Using symmetry in conformation pruning. 149: [05:17:38] --------------------------------- 149: [05:17:38] Force trans amides. 149: [05:17:38] --------------------------------- 149: [05:17:38] test missing Hs warning. 149: [05:17:38] --------------------------------- 149: [05:17:38] basic H bond support. 149: [05:17:38] ******************************************************* 215/246 Test #149: testDistGeomHelpers .................... Passed 90.46 sec test 223 Start 223: testScaffoldNetwork 223: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/testScaffoldNetwork 223: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork 223: Test timeout computed to be: 7200 174: =============================================================================== 174: All tests passed (93 assertions in 5 test cases) 174: 222: ..........[05:17:38] Explicit valence for atom # 1 N, 4, is greater than permitted 222: [05:17:38] Explicit valence for atom # 1 N, 4, is greater than permitted 222: [05:17:38] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 222: [05:17:38] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 216/246 Test #174: testRascalCluster ...................... Passed 63.14 sec test 224 Start 224: pyScaffoldNetwork 224: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/Wrap/testScaffoldNetwork.py" 224: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap 224: Test timeout computed to be: 7200 224: ....... 224: ---------------------------------------------------------------------- 224: Ran 7 tests in 0.048s 224: 224: OK 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 8 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 29 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 49 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 70 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 89 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 111 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 132 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 153 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 175 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 195 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 215 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 236 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 256 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 278 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 297 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 319 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 339 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 360 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 380 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 402 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 422 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 443 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 464 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 484 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 505 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 525 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 547 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 566 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 586 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 605 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 624 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 645 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 666 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 686 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 707 150: [05:17:39] UFFTYPER: Warning: hybridization set to SP3 for atom 729 217/246 Test #224: pyScaffoldNetwork ...................... Passed 0.52 sec test 225 Start 225: pyScaffoldNetworkPickling 225: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/Wrap/testPickleScaffoldNetwork.py" 225: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap 225: Test timeout computed to be: 7200 225: . 225: ---------------------------------------------------------------------- 225: Ran 1 test in 0.015s 225: 225: OK 218/246 Test #225: pyScaffoldNetworkPickling .............. Passed 0.44 sec test 226 Start 226: testMolEnumerator 226: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/testMolEnumerator 226: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator 226: Test timeout computed to be: 7200 226: Randomness seeded to: 1706002797 226: [05:17:39] can only enumerate SRUs with CONNECT=HT or CONNECT=HH 226: =============================================================================== 226: All tests passed (321 assertions in 16 test cases) 226: 219/246 Test #226: testMolEnumerator ...................... Passed 0.11 sec test 227 Start 227: pyMolEnumerator 227: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/Wrap/rough_test.py" 227: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap 227: Test timeout computed to be: 7200 150: =============================================================================== 150: All tests passed (12767 assertions in 24 test cases) 150: 222: ............[05:17:39] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 222: [05:17:39] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 1 ignored. 222: [05:17:39] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 1 ignored. 220/246 Test #150: distGeomHelpersCatch ................... Passed 91.52 sec test 228 Start 228: testAbbreviations 228: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/testAbbreviations 228: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations 228: Test timeout computed to be: 7200 223: Randomness seeded to: 95723752 223: =============================================================================== 223: All tests passed (273 assertions in 19 test cases) 223: 221/246 Test #223: testScaffoldNetwork .................... Passed 1.34 sec test 229 Start 229: pyAbbreviations 229: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/Wrap/testAbbreviations.py" 229: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap 229: Test timeout computed to be: 7200 228: Randomness seeded to: 2181607667 228: [05:17:39] SMARTS Parse Error: syntax error while parsing: *fail 228: [05:17:39] SMARTS Parse Error: check for mistakes around position 2: 228: [05:17:39] *fail 228: [05:17:39] ~^ 228: [05:17:39] SMARTS Parse Error: Failed parsing SMARTS '*fail' for input: '*fail' 228: [05:17:39] no suitable SubstanceGroups found 228: =============================================================================== 228: All tests passed (195 assertions in 12 test cases) 228: 222/246 Test #228: testAbbreviations ...................... Passed 0.06 sec test 230 Start 230: generalizedSubstructCatch 230: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/generalizedSubstructCatch 230: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct 230: Test timeout computed to be: 7200 230: Randomness seeded to: 3399132393 230: =============================================================================== 230: All tests passed (486 assertions in 10 test cases) 230: 222: ........[05:17:40] Explicit valence for atom # 1 O, 3, is greater than permitted 223/246 Test #230: generalizedSubstructCatch .............. Passed 0.19 sec test 231 Start 231: pyGeneralizedSubstruct 231: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/GeneralizedSubstruct/Wrap/testGeneralizedSubstruct.py" 231: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap 231: Test timeout computed to be: 7200 227: ... 227: ---------------------------------------------------------------------- 227: Ran 3 tests in 0.022s 227: 227: OK 204: ..[05:17:40] 204: 204: **** 204: Pre-condition Violation 204: no owner 204: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 204: Failed Expression: dp_mol 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 3# boost::python::objects::caller_py_function_impl, boost::mpl::vector2 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 5# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 16# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 26# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# _PyObject_MakeTpCall in /usr/bin/python3 204: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 29# 0x000000000054AD18 in /usr/bin/python3 204: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 31# 0x000000000063D08C in /usr/bin/python3 204: 32# 0x00000000005BE294 in /usr/bin/python3 204: 33# _PyObject_MakeTpCall in /usr/bin/python3 204: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 35# 0x000000000054AD18 in /usr/bin/python3 204: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 37# 0x000000000063D08C in /usr/bin/python3 204: 38# 0x00000000005BE294 in /usr/bin/python3 204: 39# _PyObject_MakeTpCall in /usr/bin/python3 204: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 41# 0x000000000054AD18 in /usr/bin/python3 204: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 43# 0x000000000063D08C in /usr/bin/python3 204: 44# 0x00000000005BE294 in /usr/bin/python3 204: 45# _PyObject_MakeTpCall in /usr/bin/python3 204: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 47# 0x0000000000516BB0 in /usr/bin/python3 204: 48# _PyObject_MakeTpCall in /usr/bin/python3 204: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 50# PyEval_EvalCode in /usr/bin/python3 204: 51# 0x000000000065EE80 in /usr/bin/python3 204: 52# 0x000000000065A730 in /usr/bin/python3 204: 53# 0x000000000067EBA0 in /usr/bin/python3 204: 54# 0x000000000067E43C in /usr/bin/python3 204: 55# 0x000000000067E1C8 in /usr/bin/python3 204: 56# Py_RunMain in /usr/bin/python3 204: 57# Py_BytesMain in /usr/bin/python3 204: 58# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 59# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# _start in /usr/bin/python3 204: ---------- 204: **** 204: 204: [05:17:40] 204: 204: **** 204: Pre-condition Violation 204: no owner 204: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 204: Failed Expression: dp_mol 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 3# RDKit::AtomGetNeighbors(RDKit::Atom*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 28# _PyObject_MakeTpCall in /usr/bin/python3 204: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 30# 0x000000000054AD18 in /usr/bin/python3 204: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 32# 0x000000000063D08C in /usr/bin/python3 204: 33# 0x00000000005BE294 in /usr/bin/python3 204: 34# _PyObject_MakeTpCall in /usr/bin/python3 204: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 36# 0x000000000054AD18 in /usr/bin/python3 204: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 38# 0x000000000063D08C in /usr/bin/python3 204: 39# 0x00000000005BE294 in /usr/bin/python3 204: 40# _PyObject_MakeTpCall in /usr/bin/python3 204: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 42# 0x000000000054AD18 in /usr/bin/python3 204: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 44# 0x000000000063D08C in /usr/bin/python3 204: 45# 0x00000000005BE294 in /usr/bin/python3 204: 46# _PyObject_MakeTpCall in /usr/bin/python3 204: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 48# 0x0000000000516BB0 in /usr/bin/python3 204: 49# _PyObject_MakeTpCall in /usr/bin/python3 204: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 51# PyEval_EvalCode in /usr/bin/python3 204: 52# 0x000000000065EE80 in /usr/bin/python3 204: 53# 0x000000000065A730 in /usr/bin/python3 204: 54# 0x000000000067EBA0 in /usr/bin/python3 204: 55# 0x000000000067E43C in /usr/bin/python3 204: 56# 0x000000000067E1C8 in /usr/bin/python3 204: 57# Py_RunMain in /usr/bin/python3 204: 58# Py_BytesMain in /usr/bin/python3 204: 59# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 61# _start in /usr/bin/python3 204: ---------- 204: **** 204: 204: [05:17:40] 204: 204: **** 204: Pre-condition Violation 204: no owner 204: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 204: Failed Expression: dp_mol 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 3# RDKit::AtomGetBonds(RDKit::Atom*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 28# _PyObject_MakeTpCall in /usr/bin/python3 204: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 30# 0x000000000054AD18 in /usr/bin/python3 204: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 32# 0x000000000063D08C in /usr/bin/python3 204: 33# 0x00000000005BE294 in /usr/bin/python3 204: 34# _PyObject_MakeTpCall in /usr/bin/python3 204: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 36# 0x000000000054AD18 in /usr/bin/python3 204: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 38# 0x000000000063D08C in /usr/bin/python3 204: 39# 0x00000000005BE294 in /usr/bin/python3 204: 40# _PyObject_MakeTpCall in /usr/bin/python3 204: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 42# 0x000000000054AD18 in /usr/bin/python3 204: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 44# 0x000000000063D08C in /usr/bin/python3 204: 45# 0x00000000005BE294 in /usr/bin/python3 204: 46# _PyObject_MakeTpCall in /usr/bin/python3 204: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 48# 0x0000000000516BB0 in /usr/bin/python3 204: 49# _PyObject_MakeTpCall in /usr/bin/python3 204: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 51# PyEval_EvalCode in /usr/bin/python3 204: 52# 0x000000000065EE80 in /usr/bin/python3 204: 53# 0x000000000065A730 in /usr/bin/python3 204: 54# 0x000000000067EBA0 in /usr/bin/python3 204: 55# 0x000000000067E43C in /usr/bin/python3 204: 56# 0x000000000067E1C8 in /usr/bin/python3 204: 57# Py_RunMain in /usr/bin/python3 204: 58# Py_BytesMain in /usr/bin/python3 204: 59# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 61# _start in /usr/bin/python3 204: ---------- 204: **** 204: 204: [05:17:40] 204: 204: **** 204: Pre-condition Violation 204: no owner 204: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 204: Failed Expression: dp_mol 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 3# RDKit::AtomIsInRing(RDKit::Atom const*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 28# _PyObject_MakeTpCall in /usr/bin/python3 204: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 30# 0x000000000054AD18 in /usr/bin/python3 204: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 32# 0x000000000063D08C in /usr/bin/python3 204: 33# 0x00000000005BE294 in /usr/bin/python3 204: 34# _PyObject_MakeTpCall in /usr/bin/python3 204: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 36# 0x000000000054AD18 in /usr/bin/python3 204: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 38# 0x000000000063D08C in /usr/bin/python3 204: 39# 0x00000000005BE294 in /usr/bin/python3 204: 40# _PyObject_MakeTpCall in /usr/bin/python3 204: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 42# 0x000000000054AD18 in /usr/bin/python3 204: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 44# 0x000000000063D08C in /usr/bin/python3 204: 45# 0x00000000005BE294 in /usr/bin/python3 204: 46# _PyObject_MakeTpCall in /usr/bin/python3 204: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 48# 0x0000000000516BB0 in /usr/bin/python3 204: 49# _PyObject_MakeTpCall in /usr/bin/python3 204: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 51# PyEval_EvalCode in /usr/bin/python3 204: 52# 0x000000000065EE80 in /usr/bin/python3 204: 53# 0x000000000065A730 in /usr/bin/python3 204: 54# 0x000000000067EBA0 in /usr/bin/python3 204: 55# 0x000000000067E43C in /usr/bin/python3 204: 56# 0x000000000067E1C8 in /usr/bin/python3 204: 57# Py_RunMain in /usr/bin/python3 204: 58# Py_BytesMain in /usr/bin/python3 204: 59# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 61# _start in /usr/bin/python3 204: ---------- 204: **** 204: 204: [05:17:40] 204: 204: **** 204: Pre-condition Violation 204: no owner 204: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 204: Failed Expression: dp_mol 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 3# RDKit::AtomIsInRingSize(RDKit::Atom const*, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 28# _PyObject_MakeTpCall in /usr/bin/python3 204: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 30# 0x000000000054AD18 in /usr/bin/python3 204: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 32# 0x000000000063D08C in /usr/bin/python3 204: 33# 0x00000000005BE294 in /usr/bin/python3 204: 34# _PyObject_MakeTpCall in /usr/bin/python3 204: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 36# 0x000000000054AD18 in /usr/bin/python3 204: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 38# 0x000000000063D08C in /usr/bin/python3 204: 39# 0x00000000005BE294 in /usr/bin/python3 204: 40# _PyObject_MakeTpCall in /usr/bin/python3 204: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 42# 0x000000000054AD18 in /usr/bin/python3 204: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 44# 0x000000000063D08C in /usr/bin/python3 204: 45# 0x00000000005BE294 in /usr/bin/python3 204: 46# _PyObject_MakeTpCall in /usr/bin/python3 204: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 48# 0x0000000000516BB0 in /usr/bin/python3 204: 49# _PyObject_MakeTpCall in /usr/bin/python3 204: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 51# PyEval_EvalCode in /usr/bin/python3 204: 52# 0x000000000065EE80 in /usr/bin/python3 204: 53# 0x000000000065A730 in /usr/bin/python3 204: 54# 0x000000000067EBA0 in /usr/bin/python3 204: 55# 0x000000000067E43C in /usr/bin/python3 204: 56# 0x000000000067E1C8 in /usr/bin/python3 204: 57# Py_RunMain in /usr/bin/python3 204: 58# Py_BytesMain in /usr/bin/python3 204: 59# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 61# _start in /usr/bin/python3 204: ---------- 204: **** 204: 204: .....[05:17:40] 204: 204: **** 204: Range Error 204: atomIdx1 204: Violation occurred on line 503 in file ./Code/GraphMol/RWMol.cpp 204: Failed Expression: 0 < 0 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::RWMol::addBond(unsigned int, unsigned int, RDKit::Bond::BondType) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 5# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 16# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 26# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# _PyObject_MakeTpCall in /usr/bin/python3 204: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 29# 0x000000000054AD18 in /usr/bin/python3 204: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 31# 0x000000000063D08C in /usr/bin/python3 204: 32# 0x00000000005BE294 in /usr/bin/python3 204: 33# _PyObject_MakeTpCall in /usr/bin/python3 204: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 35# 0x000000000054AD18 in /usr/bin/python3 204: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 37# 0x000000000063D08C in /usr/bin/python3 204: 38# 0x00000000005BE294 in /usr/bin/python3 204: 39# _PyObject_MakeTpCall in /usr/bin/python3 204: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 41# 0x000000000054AD18 in /usr/bin/python3 204: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 43# 0x000000000063D08C in /usr/bin/python3 204: 44# 0x00000000005BE294 in /usr/bin/python3 204: 45# _PyObject_MakeTpCall in /usr/bin/python3 204: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 47# 0x0000000000516BB0 in /usr/bin/python3 204: 48# _PyObject_MakeTpCall in /usr/bin/python3 204: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 50# PyEval_EvalCode in /usr/bin/python3 204: 51# 0x000000000065EE80 in /usr/bin/python3 204: 52# 0x000000000065A730 in /usr/bin/python3 204: 53# 0x000000000067EBA0 in /usr/bin/python3 204: 54# 0x000000000067E43C in /usr/bin/python3 204: 55# 0x000000000067E1C8 in /usr/bin/python3 204: 56# Py_RunMain in /usr/bin/python3 204: 57# Py_BytesMain in /usr/bin/python3 204: 58# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 59# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# _start in /usr/bin/python3 204: ---------- 204: **** 204: 204: ......[05:17:40] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 204: [05:17:40] ERROR: Smiles parse error on line 0 204: [05:17:40] ERROR: Cannot create molecule from : 'c1ccccc' 204: [05:17:40] SMILES Parse Error: extra open parentheses while parsing: C(C 204: [05:17:40] SMILES Parse Error: check for mistakes around position 2: 204: [05:17:40] C(C 204: [05:17:40] ~^ 204: [05:17:40] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 204: [05:17:40] ERROR: Smiles parse error on line 3 204: [05:17:40] ERROR: Cannot create molecule from : 'C(C' 204: [05:17:40] Explicit valence for atom # 1 C, 5, is greater than permitted 204: [05:17:40] ERROR: Could not sanitize molecule on line 6 204: [05:17:40] ERROR: Explicit valence for atom # 1 C, 5, is greater than permitted 204: [05:17:40] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 204: [05:17:40] ERROR: Smiles parse error on line 0 204: [05:17:40] ERROR: Cannot create molecule from : 'c1ccccc' 204: [05:17:40] SMILES Parse Error: extra open parentheses while parsing: C(C 204: [05:17:40] SMILES Parse Error: check for mistakes around position 2: 204: [05:17:40] C(C 204: [05:17:40] ~^ 204: [05:17:40] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 204: [05:17:40] ERROR: Smiles parse error on line 3 204: [05:17:40] ERROR: Cannot create molecule from : 'C(C' 204: [05:17:40] SMILES Parse Error: unclosed ring for input: 'C1C(Cl)CCCC' 204: [05:17:40] ERROR: Smiles parse error on line 6 204: [05:17:40] ERROR: Cannot create molecule from : 'C1C(Cl)CCCC' 204: [05:17:40] Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] ERROR: Could not sanitize molecule ending on line 21 204: [05:17:40] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] ERROR: EOF hit while reading atoms 204: [05:17:40] ERROR: moving to the beginning of the next molecule 204: [05:17:40] Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] ERROR: Could not sanitize molecule ending on line 21 204: [05:17:40] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] ERROR: EOF hit while reading atoms 204: [05:17:40] ERROR: moving to the beginning of the next molecule 204: ....[05:17:40] 204: 204: **** 204: Pre-condition Violation 204: RingInfo not initialized 204: Violation occurred on line 170 in file ./Code/GraphMol/RingInfo.cpp 204: Failed Expression: df_init 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::RingInfo::numRings() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 5# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 16# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 26# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# _PyObject_MakeTpCall in /usr/bin/python3 204: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 29# 0x000000000054AD18 in /usr/bin/python3 204: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 31# 0x000000000063D08C in /usr/bin/python3 204: 32# 0x00000000005BE294 in /usr/bin/python3 204: 33# _PyObject_MakeTpCall in /usr/bin/python3 204: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 35# 0x000000000054AD18 in /usr/bin/python3 204: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 37# 0x000000000063D08C in /usr/bin/python3 204: 38# 0x00000000005BE294 in /usr/bin/python3 204: 39# _PyObject_MakeTpCall in /usr/bin/python3 204: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 41# 0x000000000054AD18 in /usr/bin/python3 204: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 43# 0x000000000063D08C in /usr/bin/python3 204: 44# 0x00000000005BE294 in /usr/bin/python3 204: 45# _PyObject_MakeTpCall in /usr/bin/python3 204: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 47# 0x0000000000516BB0 in /usr/bin/python3 204: 48# _PyObject_MakeTpCall in /usr/bin/python3 204: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 50# PyEval_EvalCode in /usr/bin/python3 204: 51# 0x000000000065EE80 in /usr/bin/python3 204: 52# 0x000000000065A730 in /usr/bin/python3 204: 53# 0x000000000067EBA0 in /usr/bin/python3 204: 54# 0x000000000067E43C in /usr/bin/python3 204: 55# 0x000000000067E1C8 in /usr/bin/python3 204: 56# Py_RunMain in /usr/bin/python3 204: 57# Py_BytesMain in /usr/bin/python3 204: 58# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 59# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# _start in /usr/bin/python3 204: ---------- 204: **** 204: 204: ..............[05:17:40] 204: 204: **** 204: Range Error 204: idx 204: Violation occurred on line 209 in file ./Code/GraphMol/ROMol.cpp 204: Failed Expression: 3 < 1 204: ---------- 204: Stacktrace: 204: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 204: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 204: 3# boost::python::objects::caller_py_function_impl >, boost::mpl::vector3 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 5# 0x0000FFFF933D1620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 7# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSLNParse.so 204: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdChemReactions.so 204: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 204: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdDepictor.so 204: 12# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 204: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 204: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 16# 0x0000FFFF91784200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 17# 0x0000FFFF9178419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 18# 0x0000FFFF91784138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 19# 0x0000FFFF917840C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 20# 0x0000FFFF91784064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 204: 21# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 204: 25# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 26# 0x0000FFFF933CE23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 204: 27# _PyObject_MakeTpCall in /usr/bin/python3 204: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 29# 0x000000000054AD18 in /usr/bin/python3 204: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 31# 0x000000000063D08C in /usr/bin/python3 204: 32# 0x00000000005BE294 in /usr/bin/python3 204: 33# _PyObject_MakeTpCall in /usr/bin/python3 204: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 35# 0x000000000054AD18 in /usr/bin/python3 204: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 37# 0x000000000063D08C in /usr/bin/python3 204: 38# 0x00000000005BE294 in /usr/bin/python3 204: 39# _PyObject_MakeTpCall in /usr/bin/python3 204: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 41# 0x000000000054AD18 in /usr/bin/python3 204: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 43# 0x000000000063D08C in /usr/bin/python3 204: 44# 0x00000000005BE294 in /usr/bin/python3 204: 45# _PyObject_MakeTpCall in /usr/bin/python3 204: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 47# 0x0000000000516BB0 in /usr/bin/python3 204: 48# _PyObject_MakeTpCall in /usr/bin/python3 204: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 204: 50# PyEval_EvalCode in /usr/bin/python3 204: 51# 0x000000000065EE80 in /usr/bin/python3 204: 52# 0x000000000065A730 in /usr/bin/python3 204: 53# 0x000000000067EBA0 in /usr/bin/python3 204: 54# 0x000000000067E43C in /usr/bin/python3 204: 55# 0x000000000067E1C8 in /usr/bin/python3 204: 56# Py_RunMain in /usr/bin/python3 204: 57# Py_BytesMain in /usr/bin/python3 204: 58# 0x0000FFFF93FE255C in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 59# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 204: 60# _start in /usr/bin/python3 204: ---------- 204: **** 204: 204: ...[05:17:40] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 224/246 Test #227: pyMolEnumerator ........................ Passed 0.46 sec test 232 Start 232: testMolProcessing 232: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/testMolProcessing 232: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing 232: Test timeout computed to be: 7200 222: .. 222: ---------------------------------------------------------------------- 222: Ran 38 tests in 3.793s 222: 222: OK 222: done 229: ....... 229: ---------------------------------------------------------------------- 229: Ran 7 tests in 0.024s 229: 229: OK 204: ............................[05:17:40] SMILES Parse Error: unclosed ring for input: 'C1CC' 204: ......643 204: ..[05:17:40] WARNING: not removing hydrogen atom without neighbors 204: [05:17:40] WARNING: not removing hydrogen atom with dummy atom neighbors 204: [05:17:40] WARNING: not removing hydrogen atom with wedged bond 204: [05:17:40] WARNING: not removing hydrogen atom without neighbors 204: [05:17:40] WARNING: not removing hydrogen atom with dummy atom neighbors 225/246 Test #229: pyAbbreviations ........................ Passed 0.47 sec test 233 Start 233: pyMolProcessing 233: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolProcessing/Wrap/testMolProcessing.py" 233: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/Wrap 233: Test timeout computed to be: 7200 226/246 Test #222: pyMolStandardize ....................... Passed 4.32 sec test 234 Start 234: testMIF 234: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/testMIF 234: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields 234: Test timeout computed to be: 7200 234: Randomness seeded to: 243610783 234: =============================================================================== 234: All tests passed (27926 assertions in 8 test cases) 234: 227/246 Test #234: testMIF ................................ Passed 0.11 sec test 235 Start 235: pyMIF 235: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/Wrap/testMIF.py" 235: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap 235: Test timeout computed to be: 7200 231: ....... 231: ---------------------------------------------------------------------- 231: Ran 7 tests in 0.157s 231: 231: OK 204: ......[05:17:40] Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] Can't kekulize mol. Unkekulized atoms: 0 1 2 204: .[05:17:40] Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] Explicit valence for atom # 1 F, 2, is greater than permitted 204: [05:17:40] Can't kekulize mol. Unkekulized atoms: 0 1 2 204: [05:17:40] Can't kekulize mol. Unkekulized atoms: 0 1 2 204: [05:17:40] Can't kekulize mol. Unkekulized atoms: 0 1 2 228/246 Test #231: pyGeneralizedSubstruct ................. Passed 0.48 sec test 236 Start 236: testQuery 236: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Query/testQuery 236: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Query 236: Test timeout computed to be: 7200 204: ..........[05:17:40] SMARTS Parse Error: syntax error while parsing: CCC |$foo;;bar$| ourname 204: [05:17:40] SMARTS Parse Error: check for mistakes around position 4: 204: [05:17:40] CCC |$foo;;bar$| ourname 204: [05:17:40] ~~~^ 204: [05:17:40] SMARTS Parse Error: Failed parsing SMARTS 'CCC |$foo;;bar$| ourname' for input: 'CCC |$foo;;bar$| ourname' 204: .[05:17:40] SMILES Parse Error: syntax error while parsing: CCC |$foo;;bar$| ourname 204: [05:17:40] SMILES Parse Error: check for mistakes around position 4: 204: [05:17:40] CCC |$foo;;bar$| ourname 204: [05:17:40] ~~~^ 204: [05:17:40] SMILES Parse Error: Failed parsing SMILES 'CCC |$foo;;bar$| ourname' for input: 'CCC |$foo;;bar$| ourname' 204: ..[05:17:40] SMILES Parse Error: syntax error while parsing: error 204: [05:17:40] SMILES Parse Error: check for mistakes around position 1: 204: [05:17:40] error 204: [05:17:40] ^ 204: [05:17:40] SMILES Parse Error: Failed parsing SMILES 'error' for input: 'error' 204: [05:17:40] SMILES Parse Error: Failed parsing SMILES 'd' for input: 'd' 204: [05:17:40] SMARTS Parse Error: Failed parsing SMARTS 'error' for input: 'error' 204: [05:17:40] SMARTS Parse Error: Failed parsing SMARTS 'd' for input: 'd' 236: Randomness seeded to: 2125358 236: =============================================================================== 236: All tests passed (111 assertions in 16 test cases) 236: 229/246 Test #236: testQuery .............................. Passed 0.01 sec test 237 Start 237: testBaseFeatures 237: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Features/testBaseFeatures 237: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Features 237: Test timeout computed to be: 7200 237: Randomness seeded to: 3568827905 237: =============================================================================== 237: All tests passed (61 assertions in 3 test cases) 237: 230/246 Test #237: testBaseFeatures ....................... Passed 0.02 sec test 238 Start 238: testMatCalc 238: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/testMatCalc 238: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc 238: Test timeout computed to be: 7200 238: 1.68022e+08 238: 1.73149e+08 238: 1.05549e+08 238: 7.20603e+07 238: 1.41535e+08 238: 1.08592e+08 238: 1.11334e+08 238: 2.05553e+08 238: 1.54962e+08 238: 8.08231e+07 238: 5.61421e+07 238: 1.28874e+08 238: 1.59011e+08 238: 8.69902e+07 238: 1.31367e+08 238: 2.27389e+08 238: 1.60289e+08 238: 7.79813e+07 238: 1.61001e+08 238: 2.07599e+08 238: 2.24432e+08 238: 1.39725e+08 238: 2.42614e+08 238: 1.77578e+08 238: 1.05908e+08 238: 9.06742e+07 238: 1.8087e+08 238: 1.98182e+08 238: 2.03052e+08 238: 1.7673e+08 238: 9.32798e+07 238: 1.37969e+08 238: 1.83778e+08 238: 2.1228e+08 238: 5.06157e+07 238: 1.566e+08 238: 2.37142e+08 238: 1.49345e+08 238: 7.05819e+07 238: 1.71633e+08 238: 1.96817e+08 238: 2.18246e+08 238: 9.49496e+07 238: 2.25618e+08 238: 1.30219e+08 231/246 Test #238: testMatCalc ............................ Passed 0.01 sec test 239 Start 239: pyMatCalc 239: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/Wrap/testMatricCalc.py" 239: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap 239: Test timeout computed to be: 7200 204: .........................[05:17:40] SMILES Parse Error: syntax error while parsing: garbage_0 204: [05:17:40] SMILES Parse Error: check for mistakes around position 1: 204: [05:17:40] garbage_0 204: [05:17:40] ^ 204: [05:17:40] SMILES Parse Error: Failed parsing SMILES 'garbage_0' for input: 'garbage_0' 204: [05:17:40] SMILES Parse Error: syntax error while parsing: garbage_2 204: [05:17:40] SMILES Parse Error: check for mistakes around position 1: 204: [05:17:40] garbage_2 204: [05:17:40] ^ 204: [05:17:40] SMILES Parse Error: Failed parsing SMILES 'garbage_2' for input: 'garbage_2' 204: [05:17:40] SMILES Parse Error: syntax error while parsing: garbage_4 204: [05:17:40] SMILES Parse Error: check for mistakes around position 1: 204: [05:17:40] garbage_4 204: [05:17:40] ^ 204: [05:17:40] SMILES Parse Error: Failed parsing SMILES 'garbage_4' for input: 'garbage_4' 204: ............ 204: ---------------------------------------------------------------------- 204: Ran 284 tests in 12.145s 204: 204: OK 204: supplier: 204: supplier: 204: supplier: 232/246 Test #204: pyGraphMolWrap ......................... Passed 12.92 sec test 240 Start 240: testSimDivPickers 240: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/testSimDivPickers 240: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers 240: Test timeout computed to be: 7200 240: Randomness seeded to: 3951936257 240: =============================================================================== 240: All tests passed (13 assertions in 2 test cases) 240: 233/246 Test #240: testSimDivPickers ...................... Passed 0.03 sec test 241 Start 241: pickersTestsCatch 241: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/pickersTestsCatch 241: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers 241: Test timeout computed to be: 7200 235: ....... 235: ---------------------------------------------------------------------- 235: Ran 7 tests in 0.096s 235: 235: OK 235: Testing MIF wrapper 233: .. 233: ---------------------------------------------------------------------- 233: Ran 2 tests in 0.263s 233: 233: OK 241: Randomness seeded to: 4335786 241: =============================================================================== 241: All tests passed (21267 assertions in 1 test case) 241: 234/246 Test #241: pickersTestsCatch ...................... Passed 0.11 sec test 242 Start 242: pySimDivPickers 242: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/Wrap/testPickers.py" 242: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap 242: Test timeout computed to be: 7200 235/246 Test #235: pyMIF .................................. Passed 0.55 sec test 243 Start 243: pyRanker 243: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/Wrap/testRanker.py" 243: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap 243: Test timeout computed to be: 7200 236/246 Test #233: pyMolProcessing ........................ Passed 0.71 sec test 244 Start 244: testChemicalFeatures 244: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/testChemicalFeatures 244: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures 244: Test timeout computed to be: 7200 244: Randomness seeded to: 1913670656 244: =============================================================================== 244: All tests passed (24 assertions in 1 test case) 244: 237/246 Test #244: testChemicalFeatures ................... Passed 0.02 sec test 245 Start 245: pyFeatures 245: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/Wrap/testFeatures.py" 245: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap 245: Test timeout computed to be: 7200 243: ..[05:17:41] 243: 243: **** 243: Invariant Violation 243: Can't rank more bits than the ensemble size 243: Violation occurred on line 156 in file ./Code/ML/InfoTheory/InfoBitRanker.cpp 243: Failed Expression: num <= dp_maskBits->getNumOnBits() 243: ---------- 243: Stacktrace: 243: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 243: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 243: 2# RDInfoTheory::InfoBitRanker::getTopN(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitInfoTheory.so.1 243: 3# RDInfoTheory::getTopNbits(RDInfoTheory::InfoBitRanker*, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/ML/InfoTheory/rdInfoTheory.so 243: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/ML/InfoTheory/rdInfoTheory.so 243: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 243: 6# 0x0000FFFFBB761620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 243: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 243: 8# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 243: 9# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 243: 10# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 243: 11# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 243: 12# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 243: 13# 0x0000FFFFBB75E23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 243: 14# _PyObject_MakeTpCall in /usr/bin/python3 243: 15# _PyEval_EvalFrameDefault in /usr/bin/python3 243: 16# 0x000000000054AD18 in /usr/bin/python3 243: 17# _PyEval_EvalFrameDefault in /usr/bin/python3 243: 18# 0x000000000063D08C in /usr/bin/python3 243: 19# 0x00000000005BE294 in /usr/bin/python3 243: 20# _PyObject_MakeTpCall in /usr/bin/python3 243: 21# _PyEval_EvalFrameDefault in /usr/bin/python3 243: 22# 0x000000000054AD18 in /usr/bin/python3 243: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 243: 24# 0x000000000063D08C in /usr/bin/python3 243: 25# 0x00000000005BE294 in /usr/bin/python3 243: 26# _PyObject_MakeTpCall in /usr/bin/python3 243: 27# _PyEval_EvalFrameDefault in /usr/bin/python3 243: 28# 0x000000000054AD18 in /usr/bin/python3 243: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 243: 30# 0x000000000063D08C in /usr/bin/python3 243: 31# 0x00000000005BE294 in /usr/bin/python3 243: 32# _PyObject_MakeTpCall in /usr/bin/python3 243: 33# _PyEval_EvalFrameDefault in /usr/bin/python3 243: 34# 0x0000000000516BB0 in /usr/bin/python3 243: 35# _PyObject_MakeTpCall in /usr/bin/python3 243: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 243: 37# PyEval_EvalCode in /usr/bin/python3 243: 38# 0x000000000065EE80 in /usr/bin/python3 243: 39# 0x000000000065A730 in /usr/bin/python3 243: 40# 0x000000000067EBA0 in /usr/bin/python3 243: 41# 0x000000000067E43C in /usr/bin/python3 243: 42# 0x000000000067E1C8 in /usr/bin/python3 243: 43# Py_RunMain in /usr/bin/python3 243: 44# Py_BytesMain in /usr/bin/python3 243: 45# 0x0000FFFFBD43255C in /usr/lib/aarch64-linux-gnu/libc.so.6 243: 46# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 243: 47# _start in /usr/bin/python3 243: ---------- 243: **** 243: 243: ... 243: ---------------------------------------------------------------------- 243: Ran 5 tests in 0.029s 243: 243: OK 242: [05:17:41] the useCache argument is deprecated and ignored 245: .. 245: ---------------------------------------------------------------------- 245: Ran 2 tests in 0.010s 245: 245: OK 245: Testing ChemicalFeatures Wrapper code: 239: ..... 239: ---------------------------------------------------------------------- 239: Ran 5 tests in 0.458s 239: 239: OK 238/246 Test #243: pyRanker ............................... Passed 0.38 sec test 246 Start 246: pythonProjectTests 246: Test command: /usr/bin/python3 "-m" "pytest" 246: Working Directory: /build/reproducible-path/rdkit-202503.6/Projects 246: Test timeout computed to be: 7200 239/246 Test #245: pyFeatures ............................. Passed 0.38 sec 240/246 Test #239: pyMatCalc .............................. Passed 0.86 sec 242: ...[05:17:41] the useCache argument is deprecated and ignored 242: [05:17:41] the useCache argument is deprecated and ignored 242: .[05:17:41] the useCache argument is deprecated and ignored 242: ....... 242: ---------------------------------------------------------------------- 242: Ran 11 tests in 1.247s 242: 242: OK 241/246 Test #242: pySimDivPickers ........................ Passed 1.64 sec 232: Randomness seeded to: 2787991869 232: =============================================================================== 232: All tests passed (203 assertions in 1 test case) 232: 242/246 Test #232: testMolProcessing ...................... Passed 2.55 sec 246: ============================= test session starts ============================== 246: platform linux -- Python 3.13.11, pytest-9.0.2, pluggy-1.6.0 246: rootdir: /build/reproducible-path/rdkit-202503.6/Projects 246: configfile: pytest.ini 246: collected 12 items 246: 179: ......[05:17:44] 179: 179: **** 179: Invariant Violation 179: molzip: bond info not properly setup for bgn atom with label:1 179: Violation occurred on line 1093 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 179: Failed Expression: bond.a 179: ---------- 179: Stacktrace: 179: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 179: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 179: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 179: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 179: 4# RDKit::molzip(RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 179: 5# RDKit::SynthonSpaceSearch::SynthonSet::makeSynthonSearchMols() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 179: 6# RDKit::SynthonSpaceSearch::SynthonSpace::readStream(std::istream&, bool&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 179: 7# RDKit::SynthonSpaceSearch::SynthonSpace::readTextFile(std::__cxx11::basic_string, std::allocator > const&, bool&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 179: 8# RDKit::readTextFile_helper(RDKit::SynthonSpaceSearch::SynthonSpace&, std::__cxx11::basic_string, std::allocator > const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSynthonSpaceSearch.so 179: 9# boost::python::objects::caller_py_function_impl, std::allocator > const&), boost::python::default_call_policies, boost::mpl::vector3, std::allocator > const&> > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdSynthonSpaceSearch.so 179: 10# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 179: 11# 0x0000FFFFB6021620 in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 179: 12# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 179: 13# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 179: 14# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdmolfiles.so 179: 15# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 179: 16# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 179: 17# 0x0000FFFFB4504200 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 179: 18# 0x0000FFFFB450419C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 179: 19# 0x0000FFFFB4504138 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 179: 20# 0x0000FFFFB45040C8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 179: 21# 0x0000FFFFB4504064 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 179: 22# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 179: 23# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 179: 24# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 179: 25# boost::detail::function::function_obj_invoker2, boost::_bi::list3, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function0 const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function0 const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/rdBase.so 179: 26# boost::python::handle_exception_impl(boost::function0) in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 179: 27# 0x0000FFFFB601E23C in /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 179: 28# _PyObject_MakeTpCall in /usr/bin/python3 179: 29# 0x000000000054AE80 in /usr/bin/python3 179: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 179: 31# 0x000000000054AD18 in /usr/bin/python3 179: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 179: 33# 0x000000000063D08C in /usr/bin/python3 179: 34# 0x00000000005BE294 in /usr/bin/python3 179: 35# _PyObject_MakeTpCall in /usr/bin/python3 179: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 179: 37# 0x000000000054AD18 in /usr/bin/python3 179: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 179: 39# 0x000000000063D08C in /usr/bin/python3 179: 40# 0x00000000005BE294 in /usr/bin/python3 179: 41# _PyObject_MakeTpCall in /usr/bin/python3 179: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 179: 43# 0x000000000054AD18 in /usr/bin/python3 179: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 179: 45# 0x000000000063D08C in /usr/bin/python3 179: 46# 0x00000000005BE294 in /usr/bin/python3 179: 47# _PyObject_MakeTpCall in /usr/bin/python3 179: 48# _PyEval_EvalFrameDefault in /usr/bin/python3 179: 49# 0x0000000000516BB0 in /usr/bin/python3 179: 50# _PyObject_MakeTpCall in /usr/bin/python3 179: 51# _PyEval_EvalFrameDefault in /usr/bin/python3 179: 52# PyEval_EvalCode in /usr/bin/python3 179: 53# 0x000000000065EE80 in /usr/bin/python3 179: 54# 0x000000000065A730 in /usr/bin/python3 179: 55# 0x000000000067EBA0 in /usr/bin/python3 179: 56# 0x000000000067E43C in /usr/bin/python3 179: 57# 0x000000000067E1C8 in /usr/bin/python3 179: 58# Py_RunMain in /usr/bin/python3 179: 59# Py_BytesMain in /usr/bin/python3 179: 60# 0x0000FFFFB6A3255C in /usr/lib/aarch64-linux-gnu/libc.so.6 179: 61# __libc_start_main in /usr/lib/aarch64-linux-gnu/libc.so.6 179: 62# _start in /usr/bin/python3 179: ---------- 179: **** 179: 179: [05:17:44] Error:: in reaction amide-1 :: building molecule from synthons : 1-1 (c1cc[1*]ccc1C(=O)[1*]) and 2-1 ([1*]N1CCCC1) 179: molzip: bond info not properly setup for bgn atom with label:1 179: [05:17:44] Explicit valence for atom # 4 C, 5, is greater than permitted 179: [05:17:44] Error:: in reaction error-1 :: building molecule from synthons : 1-1 (C(=[2*])=CC=[1*]) and 2-1 (ClC([2*])=CN=[1*]) 179: Explicit valence for atom # 4 C, 5, is greater than permitted 179: .[05:17:49] Timed out. 179: [05:17:49] Timed out. 179: . 179: ---------------------------------------------------------------------- 179: Ran 10 tests in 57.983s 179: 179: OK 243/246 Test #179: pySynthonSpaceSearch ................... Passed 58.50 sec 220: [05:17:50] Explicit valence for atom # 0 Br, 1, is greater than permitted 220: =============================================================================== 220: All tests passed (38344 assertions in 51 test cases) 220: 244/246 Test #220: molStandardizeCatchTest ................ Passed 17.56 sec 246: DbCLI/UnitTestDbCLI.py ............ [100%] 246: 246: =============================== warnings summary =============================== 246: ../obj-aarch64-linux-gnu/rdkit/Chem/MolDb/Loader_sa.py:20 246: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/MolDb/Loader_sa.py:20: MovedIn20Warning: The ``declarative_base()`` function is now available as sqlalchemy.orm.declarative_base(). (deprecated since: 2.0) (Background on SQLAlchemy 2.0 at: https://sqlalche.me/e/b8d9) 246: decBase = declarative_base() 246: 246: -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 246: ======================== 12 passed, 1 warning in 28.26s ======================== 245/246 Test #246: pythonProjectTests ..................... Passed 29.69 sec 5: Randomness seeded to: 2468036181 5: =============================================================================== 5: All tests passed (120009 assertions in 2 test cases) 5: 246/246 Test #5: testConcurrentQueue .................... Passed 234.60 sec 100% tests passed, 0 tests failed out of 246 Total Test time (real) = 234.69 sec make[2]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=cmake dh_prep -a -O--buildsystem=cmake debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' dh_auto_install cd obj-aarch64-linux-gnu && make -j8 install DESTDIR=/build/reproducible-path/rdkit-202503.6/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/rdkit-202503.6 -B/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/RDConfig.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Geometry -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Geometry/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs/BitEnsemble.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs/LazySignature.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs/BitUtils.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs/VectCollection.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs/TopNContainer.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs/BitEnsembleDb.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataStructs/HierarchyVis.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Numerics -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Numerics/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Dbase -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Dbase/DbUtils.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Dbase/DbResultSet.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Dbase/DbModule.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Dbase/StorageUtils.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Dbase/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Dbase/DbInfo.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Dbase/DbConnection.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/RDRandom.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Avalon -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Avalon/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Draw -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Draw/FreeSans.ttf -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Draw/MolDrawing.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Draw/IPythonConsole.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Draw/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Draw/InteractiveRenderer.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Draw/SimilarityMaps.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolCatalog.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolKey -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolKey/MolKey.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolKey/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolKey/InchiInfo.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/PandasTools.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/EnumerateHeterocycles.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MCS.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/FragmentCatalog.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/SimpleEnum -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/SimpleEnum/Enumerator.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/SimpleEnum/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Descriptors.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/TemplateAlign.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolDb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolDb/Loader_sa.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolDb/Loader_orig.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolDb/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolDb/Loader.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolDb/FingerprintUtils.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolSurf.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Randomize.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/FeatFinderCLI.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Scaffolds -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Scaffolds/ScaffoldNetwork.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Scaffolds/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Scaffolds/MurckoScaffold.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/nbtests -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/nbtests/ChEMBL_quinolones.tsv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/nbtests/rdkit-structure-renderer.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/nbtests/github4823.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Subshape -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Subshape/SubshapeBuilder.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Subshape/demoCombined.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Subshape/BuilderUtils.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Subshape/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Subshape/SubshapeAligner.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Subshape/SubshapeObjects.py -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/ML/InfoTheory/entropy.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/ML/InfoTheory/BitRank.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/ML/InfoTheory/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/ML/InfoTheory/BitClusterer.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/utils -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/utils/cactvs.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/utils/spiral.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/utils/chemdraw_qax.py -- 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-- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-24.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-10.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-24.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pil -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-14.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-18.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-10.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-24.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/removemedium.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-8.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pbm -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-8.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-12.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-14.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-18.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-14.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-12.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-18.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-24.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-10.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pil -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-10.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-10.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-12.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-14.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-14.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-24.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pidPIL.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/stringformat.py -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_oh1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atrop_example1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molE.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_23_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atrop_example5.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_34_im0.png -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im3.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/WobbleRna.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_ex1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molG.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_3_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_33_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_32_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond3.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_40_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im5.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/substruct_search_parameters1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_23_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_sp3.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_9.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_1_im2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_7.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_37_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_molgrid_aligned.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/query_atoms.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_35_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_39_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/parastereo_2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/rdkit_fork_clone.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/DnaDoubleStrand.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_32_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im4.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im3.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/reaction1_highlight.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atrop_example4.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molB.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/PeptideConversion.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_sp1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atrop_example3.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_0_im2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_15_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_1_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_4.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_19_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_3.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_labels_3.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_annotation_1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/nontetstereo_sp2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_0_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_0_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_36_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_12.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molF.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_40_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_37_im2.svg -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/mcs_example_1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_charges.png -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Geometry/Transform.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Geometry/UniformGrid3D.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Geometry/UniformRealValueGrid3D.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Geometry/Utils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Geometry/rdGeometry.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitAlignment.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitAlignment.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitAlignment.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Numerics/Alignment/AlignPoints.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Numerics/rdAlignment.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitEigenSolvers.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitEigenSolvers.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitEigenSolvers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Numerics/EigenSolvers/PowerEigenSolver.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitOptimizer.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitOptimizer.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitOptimizer.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Numerics/Optimizer/BFGSOpt.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Numerics/Matrix.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Numerics/SquareMatrix.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Numerics/SymmMatrix.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Numerics/Vector.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Numerics/Conrec.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitForceField.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitForceField.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitForceField.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/Contrib.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/ForceField.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/AngleConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/AngleConstraints.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/DistanceConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/DistanceConstraints.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/PositionConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/TorsionConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/AngleBend.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/BondStretch.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/Contribs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/DistanceConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/AngleConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/TorsionConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/PositionConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/Nonbonded.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/Params.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/Utils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/Inversion.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/Inversions.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/UFF/TorsionAngle.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/AngleBend.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/BondStretch.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/StretchBend.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/OopBend.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/TorsionAngle.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/Nonbonded.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/Contribs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/DistanceConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/AngleConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/TorsionConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/PositionConstraint.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ForceField/MMFF/Params.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/ForceField/rdForceField.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDistGeometry.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDistGeometry.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDistGeometry.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DistGeom/BoundsMatrix.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DistGeom/ChiralSet.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DistGeom/ChiralViolationContribs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DistGeom/DistGeomUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DistGeom/DistViolationContribs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DistGeom/FourthDimContribs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DistGeom/TriangleSmooth.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DistanceGeometry/DistGeom.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitCatalogs.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitCatalogs.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitCatalogs.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Catalogs/CatalogEntry.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Catalogs/Catalog.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Catalogs/CatalogParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGraphMol.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGraphMol.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGraphMol.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Atom.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/atomic_data.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/AtomIterators.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Atropisomers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Bond.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/BondIterators.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Canon.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Chirality.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Conformer.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/details.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/GraphMol.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolOps.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolPickler.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/PeriodicTable.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/QueryAtom.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/QueryBond.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/QueryOps.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RDKitBase.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RDKitQueries.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Resonance.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RingInfo.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Rings.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ROMol.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RWMol.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SanitException.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SubstanceGroup.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/StereoGroup.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MonomerInfo.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/new_canon.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolBundle.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSmilesParse.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSmilesParse.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSmilesParse.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmartsWrite.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesParse.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesParseOps.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesWrite.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/CanonicalizeStereoGroups.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesJSONParsers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDepictor.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDepictor.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDepictor.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Depictor/DepictUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Depictor/EmbeddedFrag.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Depictor/RDDepictor.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdDepictor.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMarvinParser.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMarvinParser.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMarvinParser.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MarvinParse/MarvinParser.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFileParsers.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFileParsers.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFileParsers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/CDXMLParser.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/FileParsers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/FileParserUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolFileStereochem.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/FileWriters.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolSupplier.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolSupplier.v1API.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolWriters.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/SequenceParsers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/SequenceWriters.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/GeneralFileReader.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MultithreadedMolSupplier.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MultithreadedSDMolSupplier.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/PNGParser.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubstructMatch.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubstructMatch.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubstructMatch.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Substruct/SubstructMatch.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Substruct/SubstructUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGenericGroups.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGenericGroups.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGenericGroups.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/GenericGroups/GenericGroups.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemReactions.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemReactions.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemReactions.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Reaction.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionParser.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionPickler.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionFingerprints.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionRunner.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/PreprocessRxn.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/SanitizeRxn.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/Enumerate.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerateBase.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/CartesianProduct.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/RandomSample.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdChemReactions.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemTransforms.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemTransforms.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemTransforms.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemTransforms/ChemTransforms.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemTransforms/MolFragmenter.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ChemTransforms/MolFragmenterJSONParser.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitTautomerQuery.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitTautomerQuery.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitTautomerQuery.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/TautomerQuery/TautomerQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdTautomerQuery.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubgraphs.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubgraphs.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubgraphs.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Subgraphs/Subgraphs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Subgraphs/SubgraphUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFilterCatalog.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFilterCatalog.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFilterCatalog.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalogEntry.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalog.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatcherBase.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatchers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdfiltercatalog.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFragCatalog.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFragCatalog.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFragCatalog.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogEntry.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatGenerator.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragFPGenerator.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdfragcatalog.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDescriptors.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDescriptors.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDescriptors.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Crippen.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/BCUT.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Lipinski.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolDescriptors.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolSurf.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/ConnectivityDescriptors.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MQN.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/RegisterDescriptor.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Property.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/AUTOCORR2D.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Data3Ddescriptors.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolData3Ddescriptors.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/USRDescriptor.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/AtomFeat.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/OxidationNumbers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/DCLV.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolDescriptors3D.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/EEM.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/PBF.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/PMI.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/AUTOCORR3D.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/RDF.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MORSE.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/GETAWAY.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/WHIM.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/CoulombMat.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolDescriptors.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFingerprints.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFingerprints.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFingerprints.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/AtomPairs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/Fingerprints.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MorganFingerprints.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MACCS.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MHFP.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/FingerprintGenerator.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/AtomPairGenerator.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MorganGenerator.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/RDKitFPGenerator.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/FingerprintUtil.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdFingerprintGenerator.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMHFPFingerprint.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitPartialCharges.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitPartialCharges.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitPartialCharges.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/PartialCharges/GasteigerCharges.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/PartialCharges/GasteigerParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdPartialCharges.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolTransforms.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolTransforms.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolTransforms.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolTransforms/MolTransforms.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolTransforms.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/FFConvenience.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/Builder.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/UFF.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/Builder.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/MMFF.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleContribs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdForceFieldHelpers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/DistGeomHelpers/Embedder.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdDistGeom.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolAlign.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolAlign.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolAlign.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitO3AAlign.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitO3AAlign.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitO3AAlign.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolAlign/AlignMolecules.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolAlign/O3AAlignMolecules.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolAlign.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/FeatureParser.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeature.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolChemicalFeatures.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitShapeHelpers.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitShapeHelpers.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitShapeHelpers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeEncoder.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdShapeHelpers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolCatalog.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolCatalog.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolCatalog.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogEntry.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalog.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolCatalog.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2D.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DSVG.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2Dwx.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DJS.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DHelpers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolDraw2D.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolDraw2D.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolDraw2D.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DCairo.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Draw/rdMolDraw2D.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFMCS.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFMCS.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitFMCS.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FMCS/FMCS.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/FMCS/Graph.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdFMCS.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolHash.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolHash.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolHash.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolHash/MolHash.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolHash/nmmolhash.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolHash.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMMPA.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMMPA.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMMPA.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MMPA/MMPA.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMMPA.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitRascalMCES.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitRascalMCES.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitRascalMCES.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RascalMCES/RascalMCES.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RascalMCES/RascalOptions.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RascalMCES/RascalClusterOptions.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RascalMCES/RascalResult.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdRascalMCES.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSynthonSpaceSearch.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSynthonSpaceSearch.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSynthonSpaceSearch.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpace.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSet.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SynthonSpaceSearch/Synthon.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SynthonSpaceSearch/SearchResults.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpaceSubstructureSearcher.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpaceFingerprintSearcher.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpaceRascalSearcher.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdSynthonSpaceSearch.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitEnumerateStereoisomers.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitEnumerateStereoisomers.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitEnumerateStereoisomers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/EnumerateStereoisomers/EnumerateStereoisomers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/EnumerateStereoisomers/Flippers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdEnumerateStereoisomers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitCIPLabeler.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitCIPLabeler.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitCIPLabeler.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/CIPLabeler/CIPLabeler.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/CIPLabeler/TooManyNodesException.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdCIPLabeler.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDeprotect.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDeprotect.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDeprotect.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Deprotect/Deprotect.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdDeprotect.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitReducedGraphs.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitReducedGraphs.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitReducedGraphs.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ReducedGraphs/ReducedGraphs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdReducedGraphs.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitTrajectory.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitTrajectory.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitTrajectory.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Trajectory/Snapshot.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Trajectory/Trajectory.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubstructLibrary.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubstructLibrary.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSubstructLibrary.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrary.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SubstructLibrary/PatternFactory.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdSubstructLibrary.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecomp.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecompParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecompJSONParsers.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdRGroupDecomposition.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDetermineBonds.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDetermineBonds.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitDetermineBonds.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/DetermineBonds/DetermineBonds.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdDetermineBonds.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolInterchange.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolInterchange.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolInterchange.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolInterchange/MolInterchange.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolInterchange/details.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolInterchange.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSLNParse.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSLNParse.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSLNParse.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNAttribs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNParse.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNParseOps.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdSLNParse.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdchem.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdmolops.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdqueries.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdmolfiles.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdtrajectory.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolStandardize.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolStandardize.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolStandardize.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Pipeline.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/MolStandardize.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Metal.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Normalize.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Validate.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Charge.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Tautomer.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Fragment.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolStandardize/rdMolStandardize.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitScaffoldNetwork.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitScaffoldNetwork.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitScaffoldNetwork.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Scaffolds/rdScaffoldNetwork.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolEnumerator.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolEnumerator.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolEnumerator.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolEnumerator/MolEnumerator.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolEnumerator/LinkNode.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolEnumerator.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitAbbreviations.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitAbbreviations.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitAbbreviations.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/Abbreviations/Abbreviations.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdAbbreviations.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGeneralizedSubstruct.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitGeneralizedSubstruct.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/GeneralizedSubstruct/XQMol.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdGeneralizedSubstruct.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolProcessing.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolProcessing.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolProcessing.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolProcessing/MolProcessing.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMolProcessing.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolInteractionFields.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolInteractionFields.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitMolInteractionFields.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/GraphMol/MolInteractionFields/MIFDescriptors.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdMIF.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/AndQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/EqualityQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/GreaterEqualQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/GreaterQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/LessEqualQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/LessQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/NullQueryAlgebra.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/OrQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/Query.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/QueryObjects.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/RangeQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/SetQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Query/XOrQuery.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/Features/Feature.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricFuncs.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricMatrixCalc.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSimDivPickers.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSimDivPickers.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitSimDivPickers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/SimDivPickers/DistPicker.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/SimDivPickers/LeaderPicker.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/SimDivPickers/HierarchicalClusterPicker.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/SimDivPickers/MaxMinPicker.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKithc.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKithc.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKithc.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/ML/Cluster/Clustering.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitInfoTheory.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitInfoTheory.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitInfoTheory.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/ML/Data/cQuantize.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemicalFeatures.so.1.2025.03.6 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemicalFeatures.so.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/libRDKitChemicalFeatures.so -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ChemicalFeatures/ChemicalFeature.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/include/rdkit/ChemicalFeatures/FreeChemicalFeature.h -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/rdChemicalFeatures.so ===================================================================== PostgreSQL cartridge installation succeeded. ===================================================================== Restart the PostgreSQL service before using the PostgreSQL RDKit cartridge. ===================================================================== -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/RDPaths.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/cmake/rdkit/rdkit-targets.cmake -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/cmake/rdkit/rdkit-targets-none.cmake -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/cmake/rdkit/rdkit-config.cmake -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/cmake/rdkit/rdkit-config-version.cmake -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/cmake/rdkitpython/rdkitpython-targets.cmake -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/cmake/rdkitpython/rdkitpython-targets-none.cmake -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/cmake/rdkitpython/rdkitpython-config.cmake -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/cmake/rdkitpython/rdkitpython-config-version.cmake make[2]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' mkdir -p /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3 mv /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3/dist-packages rm -f -rf /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13 ln -sf /usr/share/fonts/truetype/freefont/FreeSans.ttf /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/FreeSans.ttf dh_install -ppython3-rdkit /usr/lib/python3 rm -f -rf /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3/dist-packages/rdkit/docs/ rm -f -rf /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Projects/__pycache__ rm -f -rf /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Projects/DbCLI/__pycache__ dh_numpy3 Can't stat debian/librdkit1t64: No such file or directory at /usr/bin/dh_numpy3 line 86. Can't stat debian/librdkit-dev: No such file or directory at /usr/bin/dh_numpy3 line 86. Can't stat debian/postgresql-18-rdkit: No such file or directory at /usr/bin/dh_numpy3 line 86. dh_numpy3: skipping binary package librdkit1t64 which does not depend on the NumPy C ABI dh_numpy3: skipping binary package librdkit-dev which does not depend on the NumPy C ABI dh_numpy3: skipping binary package postgresql-18-rdkit which does not depend on the NumPy C ABI dh_install for v in $(pg_buildext supported-versions); do \ mkdir -p debian/postgresql-$v-rdkit/usr/lib/postgresql/$v/lib/ debian/postgresql-$v-rdkit/usr/share/postgresql/$v/extension/; \ cp Code/PgSQL/rdkit/build-$v/librdkit.so debian/postgresql-$v-rdkit/usr/lib/postgresql/$v/lib/rdkit.so; \ cp Code/PgSQL/rdkit/build-$v/rdkit*.sql debian/postgresql-$v-rdkit/usr/share/postgresql/$v/extension/; \ cp Code/PgSQL/rdkit/build-$v/update_sql/rdkit*.sql debian/postgresql-$v-rdkit/usr/share/postgresql/$v/extension/; \ cp Code/PgSQL/rdkit/rdkit.control debian/postgresql-$v-rdkit/usr/share/postgresql/$v/extension/; \ done mkdir -p /build/reproducible-path/rdkit-202503.6/debian/rdkit-doc/usr/share/doc/rdkit/ # cp /build/reproducible-path/rdkit-202503.6/Docs/Book/_build/latex/RDKit.pdf /build/reproducible-path/rdkit-202503.6/debian/rdkit-doc/usr/share/doc/rdkit/ cp -a /build/reproducible-path/rdkit-202503.6/Docs/Book/_build/html /build/reproducible-path/rdkit-202503.6/debian/rdkit-doc/usr/share/doc/rdkit/ ln -sf /usr/share/javascript/jquery/jquery.js /build/reproducible-path/rdkit-202503.6/debian/rdkit-doc/usr/share/doc/rdkit//html/cppapi/jquery.js ln -sf /usr/share/javascript/jquery/jquery.js /build/reproducible-path/rdkit-202503.6/debian/rdkit-doc/usr/share/doc/rdkit//html/_static/jquery.js ln -sf /usr/share/javascript/underscore/underscore.js /build/reproducible-path/rdkit-202503.6/debian/rdkit-doc/usr/share/doc/rdkit//html/_static/underscore.js make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' dh_installdocs -a -O--buildsystem=cmake debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' dh_installchangelogs ReleaseNotes.md make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' debian/rules override_dh_python3 make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' dh_python3 -ppython3-rdkit I: dh_python3 fs:521: renaming rdBase.so to rdBase.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdGeometry.so to rdGeometry.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming cDataStructs.so to cDataStructs.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdAlignment.so to rdAlignment.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdAbbreviations.so to rdAbbreviations.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdCIPLabeler.so to rdCIPLabeler.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdChemReactions.so to rdChemReactions.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdChemicalFeatures.so to rdChemicalFeatures.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdCoordGen.so to rdCoordGen.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdDepictor.so to rdDepictor.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdDeprotect.so to rdDeprotect.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdDetermineBonds.so to rdDetermineBonds.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdDistGeom.so to rdDistGeom.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdEnumerateStereoisomers.so to rdEnumerateStereoisomers.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdFMCS.so to rdFMCS.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdFingerprintGenerator.so to rdFingerprintGenerator.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdForceFieldHelpers.so to rdForceFieldHelpers.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdGeneralizedSubstruct.so to rdGeneralizedSubstruct.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMHFPFingerprint.so to rdMHFPFingerprint.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMIF.so to rdMIF.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMMPA.so to rdMMPA.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolAlign.so to rdMolAlign.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolCatalog.so to rdMolCatalog.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolChemicalFeatures.so to rdMolChemicalFeatures.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolDescriptors.so to rdMolDescriptors.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolEnumerator.so to rdMolEnumerator.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolHash.so to rdMolHash.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolInterchange.so to rdMolInterchange.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolProcessing.so to rdMolProcessing.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolTransforms.so to rdMolTransforms.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdPartialCharges.so to rdPartialCharges.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdRGroupDecomposition.so to rdRGroupDecomposition.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdRascalMCES.so to rdRascalMCES.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdReducedGraphs.so to rdReducedGraphs.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdSLNParse.so to rdSLNParse.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdShapeHelpers.so to rdShapeHelpers.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdSubstructLibrary.so to rdSubstructLibrary.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdSynthonSpaceSearch.so to rdSynthonSpaceSearch.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdTautomerQuery.so to rdTautomerQuery.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdchem.so to rdchem.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdfiltercatalog.so to rdfiltercatalog.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdfragcatalog.so to rdfragcatalog.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdinchi.so to rdinchi.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdmolfiles.so to rdmolfiles.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdmolops.so to rdmolops.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdqueries.so to rdqueries.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdtrajectory.so to rdtrajectory.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolDraw2D.so to rdMolDraw2D.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdScaffoldNetwork.so to rdScaffoldNetwork.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMolStandardize.so to rdMolStandardize.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdMetricMatrixCalc.so to rdMetricMatrixCalc.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdForceField.so to rdForceField.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming DistGeom.so to DistGeom.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdSimDivPickers.so to rdSimDivPickers.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming Clustering.so to Clustering.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming cQuantize.so to cQuantize.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:521: renaming rdInfoTheory.so to rdInfoTheory.cpython-313-aarch64-linux-gnu.so dh_numpy3 -ppython3-rdkit make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' dh_installsystemduser -a -O--buildsystem=cmake dh_lintian -a -O--buildsystem=cmake dh_perl -a -O--buildsystem=cmake dh_link -a -O--buildsystem=cmake dh_strip_nondeterminism -a -O--buildsystem=cmake dh_compress -a -O--buildsystem=cmake dh_fixperms -a -O--buildsystem=cmake debian/rules override_dh_missing make[1]: Entering directory '/build/reproducible-path/rdkit-202503.6' dh_missing --list-missing dh_missing: warning: usr/lib/postgresql/18/lib/rdkit.so exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/README exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/ForceField/ForceFieldTerms.new.odt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Analysis/ForceField/UFF Parameters.ods exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/BackwardsIncompatibleChanges.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/CMakeLists.txt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/FindMyRDKit.cmake exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example1.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example10.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example11.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example12.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example13.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example14.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example15.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example16.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example17.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example2.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example3.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example4.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example5.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example6.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example7.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example8.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/C++Examples/example9.cpp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/Cartridge.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/Cookbook.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/GettingStartedInC++.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/GettingStartedInPython.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/GettingStartedWithContributing.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/Install.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/Makefile exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/Overview.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/RDKit_Book.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/api-docs.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/conf.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/5ht3ligs.sdf exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/AmideBond.rxn exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/CrossLink.mol exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/DnaTest3.mol exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/MinimalFeatures.fdef exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/README.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/actives_5ht3.sdf exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/actives_5ht3.sdf.gz exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/bzr.sdf exists in debian/tmp but is not installed to 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installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_cis_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_or2_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_trans_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo.ai exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo.inkscape.svg exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo.lrg.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo_plain.inkscape.svg exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/logo_plain.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Images/wiki/morganfp_atomenv1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/FingerprintGenerators.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/MolStandardize.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-DummyCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GA.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GenericCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-MutipleCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-RingSubstitution.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-StereoChemTest.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-Tests.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-example-lactam.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Notebooks/compounds.txt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/RD.css exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/README.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/FeatFinderCLI.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/PythonFormat.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/README.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/create_deb_packages.sh exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/gen_rdkit_stubs/__init__.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/gen_rdkit_stubs/__main__.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/gen_rdkit_stubs/worker.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/patch_rdkit_docstrings/__init__.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/patch_rdkit_docstrings/__main__.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/patch_rdkit_docstrings/clang_worker.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Scripts/test.sh exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/license.txt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--3.8--4.0.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.0--4.0.1.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.0.1--4.1.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.1--4.1.1.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.1.1--4.2.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.2--4.3.0.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.3.0--4.4.0.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.4.0--4.5.0.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.5.0--4.6.0.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.6.0--4.6.1.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.6.1--4.7.0.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit--4.7.0.sql exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/postgresql/18/extension/rdkit.control exists in debian/tmp but is not installed to anywhere The following debhelper tools have reported what they installed (with files per package) * dh_install: librdkit-dev (66), librdkit1t64 (128), postgresql-18-rdkit (0), python3-rdkit (1), rdkit-data (3), rdkit-doc (0) * dh_installdocs: librdkit-dev (0), librdkit1t64 (0), postgresql-18-rdkit (0), python3-rdkit (0), rdkit-data (0), rdkit-doc (0) If the missing files are installed by another tool, please file a bug against it. When filing the report, if the tool is not part of debhelper itself, please reference the "Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+). (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.md.gz) Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built If the omission is intentional or no other helper can take care of this consider adding the paths to debian/not-installed. make[1]: Leaving directory '/build/reproducible-path/rdkit-202503.6' dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dpkg-shlibdeps: warning: debian/postgresql-18-rdkit/usr/lib/postgresql/18/lib/rdkit.so contains an unresolvable reference to symbol errcode: it is probably a plugin dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: symbol PyExc_AttributeError used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyLong_FromUnsignedLong used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyObject_HasAttrString used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol _Py_NoneStruct used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyErr_SetObject used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyObject_IsTrue used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyUnicode_FromStringAndSize used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol _Py_Dealloc used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyExc_IndexError used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyLong_FromLong used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dh_installdeb -a -O--buildsystem=cmake dh_gencontrol -a -O--buildsystem=cmake dpkg-gencontrol: warning: Depends field of package librdkit-dev: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: Provides field of package python3-rdkit: substitution variable ${python3:Provides} used, but is not defined dpkg-gencontrol: warning: Breaks field of package postgresql-18-rdkit: substitution variable ${postgresql:Breaks} used, but is not defined dpkg-gencontrol: warning: Provides field of package python3-rdkit: substitution variable ${python3:Provides} used, but is not defined dpkg-gencontrol: warning: Breaks field of package postgresql-18-rdkit: substitution variable ${postgresql:Breaks} used, but is not defined dh_md5sums -a -O--buildsystem=cmake dh_builddeb -a -O--buildsystem=cmake dpkg-deb: building package 'librdkit-dev' in '../librdkit-dev_202503.6-3_arm64.deb'. dpkg-deb: building package 'postgresql-18-rdkit' in '../postgresql-18-rdkit_202503.6-3_arm64.deb'. dpkg-deb: building package 'librdkit1t64' in '../librdkit1t64_202503.6-3_arm64.deb'. dpkg-deb: building package 'python3-rdkit' in '../python3-rdkit_202503.6-3_arm64.deb'. dpkg-deb: building package 'librdkit1t64-dbgsym' in '../librdkit1t64-dbgsym_202503.6-3_arm64.deb'. dpkg-deb: building package 'python3-rdkit-dbgsym' in '../python3-rdkit-dbgsym_202503.6-3_arm64.deb'. dpkg-deb: building package 'postgresql-18-rdkit-dbgsym' in '../postgresql-18-rdkit-dbgsym_202503.6-3_arm64.deb'. dpkg-genbuildinfo --build=any -O../rdkit_202503.6-3_arm64.buildinfo dpkg-genchanges --build=any -O../rdkit_202503.6-3_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2026-01-16T05:22:17Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Fri, 16 Jan 2026 05:22:19 +0000 | +------------------------------------------------------------------------------+ rdkit_202503.6-3_arm64.changes: ------------------------------- Format: 1.8 Date: Tue, 21 Oct 2025 06:00:34 -0400 Source: rdkit Binary: librdkit-dev librdkit1t64 librdkit1t64-dbgsym postgresql-18-rdkit postgresql-18-rdkit-dbgsym python3-rdkit python3-rdkit-dbgsym Architecture: arm64 Version: 202503.6-3 Distribution: unstable Urgency: medium Maintainer: Debichem Team Changed-By: Andrius Merkys Description: librdkit-dev - Collection of cheminformatics and machine-learning software (deve librdkit1t64 - Collection of cheminformatics and machine-learning software (shar postgresql-18-rdkit - Cheminformatics and machine-learning software (PostgreSQL Cartrid python3-rdkit - Collection of cheminformatics and machine-learning software Closes: 1117731 Changes: rdkit (202503.6-3) unstable; urgency=medium . * Increase ctest timeout to 7200 (Closes: #1117731). Thanks Adrian Bunk. Checksums-Sha1: 57fe5e3ecfc183f1db93b6664b6be921ca8cd8b8 494456 librdkit-dev_202503.6-3_arm64.deb 73d805edb76b7fc6de844196eb0dec2644b42bc6 123803000 librdkit1t64-dbgsym_202503.6-3_arm64.deb 52aba847971e5ddbb8a832bd092ce303d5efc435 5247124 librdkit1t64_202503.6-3_arm64.deb f73847ba3a121c418e5d235d0db7341e2f5c7ea6 1161124 postgresql-18-rdkit-dbgsym_202503.6-3_arm64.deb 8c4bee5cd20928bbfef479a863fca4e49e614582 249892 postgresql-18-rdkit_202503.6-3_arm64.deb f54cd908f0a6908272aca881d200a7f022b5a396 62654476 python3-rdkit-dbgsym_202503.6-3_arm64.deb a15636c766e6998cc9c917940118fdcdb5773be2 4388084 python3-rdkit_202503.6-3_arm64.deb 2dbb93dee2659447b41e7f8078b51094612579ae 17896 rdkit_202503.6-3_arm64.buildinfo Checksums-Sha256: 755905a1d12f1eb38893fed20d67c1d48b0fd71f62c44b3c9be11948b6735bb3 494456 librdkit-dev_202503.6-3_arm64.deb b61c8554326a533f92ab989183ef01e1827790ecc65f08c3176431a80ba7a98e 123803000 librdkit1t64-dbgsym_202503.6-3_arm64.deb da421e7b72ef00c9baae106a9ecdc875a2e4104ee3621d011e369d976c5573d6 5247124 librdkit1t64_202503.6-3_arm64.deb d8f448e6a5c3654a406e29227f4406619fb4d1753cdd8c6946223d0c978bcd12 1161124 postgresql-18-rdkit-dbgsym_202503.6-3_arm64.deb 397fe9c54bda06a8ea84d6de5f0e2e995e027bb6a24c9da4f7dad616c54d6128 249892 postgresql-18-rdkit_202503.6-3_arm64.deb 356c1eadb9210d366d0fa501e12675736fb58dcf5d6b6223b4c2ede1cf5f74cf 62654476 python3-rdkit-dbgsym_202503.6-3_arm64.deb a73d94776004c35921b9551f69d1279684825874ba3b0eae1d37d1f2e8eec8cb 4388084 python3-rdkit_202503.6-3_arm64.deb daa1eb3925769b71c217ce048716ee321ed445498e722e65ed9f3832a92955ec 17896 rdkit_202503.6-3_arm64.buildinfo Files: c0c9470b0ecae7d25e4b354e794b5753 494456 libdevel optional librdkit-dev_202503.6-3_arm64.deb e918247d4ea228dedd1e1bbe8dee7010 123803000 debug optional librdkit1t64-dbgsym_202503.6-3_arm64.deb 61217165d4157fc860c5f2d5e649242a 5247124 libs optional librdkit1t64_202503.6-3_arm64.deb e34f7356e98b3f820db9496989a50e4e 1161124 debug optional postgresql-18-rdkit-dbgsym_202503.6-3_arm64.deb eda7ac20b71f07753ad4418ebc5b5e74 249892 database optional postgresql-18-rdkit_202503.6-3_arm64.deb 190c609c77b5d2aab113c9b72247d843 62654476 debug optional python3-rdkit-dbgsym_202503.6-3_arm64.deb 5a55558ee3404b78ef2601e985cc946d 4388084 python optional python3-rdkit_202503.6-3_arm64.deb 1d8925d415f8113ac0ff09a9b82b16d6 17896 science optional rdkit_202503.6-3_arm64.buildinfo +------------------------------------------------------------------------------+ | Buildinfo Fri, 16 Jan 2026 05:22:20 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: rdkit Binary: librdkit-dev librdkit1t64 librdkit1t64-dbgsym postgresql-18-rdkit postgresql-18-rdkit-dbgsym python3-rdkit python3-rdkit-dbgsym Architecture: arm64 Version: 202503.6-3 Checksums-Md5: c0c9470b0ecae7d25e4b354e794b5753 494456 librdkit-dev_202503.6-3_arm64.deb e918247d4ea228dedd1e1bbe8dee7010 123803000 librdkit1t64-dbgsym_202503.6-3_arm64.deb 61217165d4157fc860c5f2d5e649242a 5247124 librdkit1t64_202503.6-3_arm64.deb e34f7356e98b3f820db9496989a50e4e 1161124 postgresql-18-rdkit-dbgsym_202503.6-3_arm64.deb eda7ac20b71f07753ad4418ebc5b5e74 249892 postgresql-18-rdkit_202503.6-3_arm64.deb 190c609c77b5d2aab113c9b72247d843 62654476 python3-rdkit-dbgsym_202503.6-3_arm64.deb 5a55558ee3404b78ef2601e985cc946d 4388084 python3-rdkit_202503.6-3_arm64.deb Checksums-Sha1: 57fe5e3ecfc183f1db93b6664b6be921ca8cd8b8 494456 librdkit-dev_202503.6-3_arm64.deb 73d805edb76b7fc6de844196eb0dec2644b42bc6 123803000 librdkit1t64-dbgsym_202503.6-3_arm64.deb 52aba847971e5ddbb8a832bd092ce303d5efc435 5247124 librdkit1t64_202503.6-3_arm64.deb f73847ba3a121c418e5d235d0db7341e2f5c7ea6 1161124 postgresql-18-rdkit-dbgsym_202503.6-3_arm64.deb 8c4bee5cd20928bbfef479a863fca4e49e614582 249892 postgresql-18-rdkit_202503.6-3_arm64.deb f54cd908f0a6908272aca881d200a7f022b5a396 62654476 python3-rdkit-dbgsym_202503.6-3_arm64.deb a15636c766e6998cc9c917940118fdcdb5773be2 4388084 python3-rdkit_202503.6-3_arm64.deb Checksums-Sha256: 755905a1d12f1eb38893fed20d67c1d48b0fd71f62c44b3c9be11948b6735bb3 494456 librdkit-dev_202503.6-3_arm64.deb b61c8554326a533f92ab989183ef01e1827790ecc65f08c3176431a80ba7a98e 123803000 librdkit1t64-dbgsym_202503.6-3_arm64.deb da421e7b72ef00c9baae106a9ecdc875a2e4104ee3621d011e369d976c5573d6 5247124 librdkit1t64_202503.6-3_arm64.deb d8f448e6a5c3654a406e29227f4406619fb4d1753cdd8c6946223d0c978bcd12 1161124 postgresql-18-rdkit-dbgsym_202503.6-3_arm64.deb 397fe9c54bda06a8ea84d6de5f0e2e995e027bb6a24c9da4f7dad616c54d6128 249892 postgresql-18-rdkit_202503.6-3_arm64.deb 356c1eadb9210d366d0fa501e12675736fb58dcf5d6b6223b4c2ede1cf5f74cf 62654476 python3-rdkit-dbgsym_202503.6-3_arm64.deb a73d94776004c35921b9551f69d1279684825874ba3b0eae1d37d1f2e8eec8cb 4388084 python3-rdkit_202503.6-3_arm64.deb Build-Origin: Debian Build-Architecture: arm64 Build-Date: Fri, 16 Jan 2026 05:22:14 +0000 Build-Path: /build/reproducible-path/rdkit-202503.6 Installed-Build-Depends: adduser (= 3.154), architecture-properties (= 0.2.6), 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 (= 2.45.50.20251209-1), binutils-aarch64-linux-gnu (= 2.45.50.20251209-1), binutils-common (= 2.45.50.20251209-1), bison (= 2:3.8.2+dfsg-1+b2), bsdextrautils (= 2.41.3-3), build-essential (= 12.12), bzip2 (= 1.0.8-6), ca-certificates (= 20250419), catch2 (= 3.7.1-0.6), clang-21 (= 1:21.1.8-1+b1), cmake (= 4.2.1-2), cmake-data (= 4.2.1-2), coreutils (= 9.7-3), cpp (= 4:15.2.0-4), cpp-15 (= 15.2.0-12), cpp-15-aarch64-linux-gnu (= 15.2.0-12), cpp-aarch64-linux-gnu (= 4:15.2.0-4), dash (= 0.5.12-12), debconf (= 1.5.91), debhelper (= 13.29), debianutils (= 5.23.2), dh-autoreconf (= 21), dh-python (= 7.20251231), dh-strip-nondeterminism (= 1.15.0-1), diffutils (= 1:3.12-1), docutils-common (= 0.22.4+dfsg-1), doxygen (= 1.15.0+ds1-1+b1), dpkg (= 1.23.3), dpkg-dev (= 1.23.3), dwz (= 0.16-2), file (= 1:5.46-5), findutils (= 4.10.0-3), flex (= 2.6.4-8.2+b4), fontconfig (= 2.17.1-3), fontconfig-config (= 2.17.1-3), fonts-dejavu-core (= 2.37-8), fonts-dejavu-mono (= 2.37-8), fonts-lmodern (= 2.005-1), g++ (= 4:15.2.0-4), g++-15 (= 15.2.0-12), g++-15-aarch64-linux-gnu (= 15.2.0-12), g++-aarch64-linux-gnu (= 4:15.2.0-4), gcc (= 4:15.2.0-4), gcc-15 (= 15.2.0-12), gcc-15-aarch64-linux-gnu (= 15.2.0-12), gcc-15-base (= 15.2.0-12), gcc-aarch64-linux-gnu (= 4:15.2.0-4), gettext (= 0.23.2-1), gettext-base (= 0.23.2-1), girepository-tools (= 2.86.3-4), grep (= 3.12-1), groff-base (= 1.23.0-10), gzip (= 1.13-1), hicolor-icon-theme (= 0.18-2), hostname (= 3.25), icu-devtools (= 76.1-4), imagemagick (= 8:7.1.2.12+dfsg1-1), imagemagick-7-common (= 8:7.1.2.12+dfsg1-1), imagemagick-7.q16 (= 8:7.1.2.12+dfsg1-1), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), latexmk (= 1:4.87~ds-1), libabsl20240722 (= 20240722.0-4), libacl1 (= 2.3.2-2+b1), libaom3 (= 3.13.1-2), libapache-pom-java (= 33-2), libarchive-zip-perl (= 1.68-1), libarchive13t64 (= 3.8.5-1), libasan8 (= 15.2.0-12), libatomic1 (= 15.2.0-12), libattr1 (= 1:2.5.2-3), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b1), libavif16 (= 1.3.0-1+b2), libbinutils (= 2.45.50.20251209-1), libblas3 (= 3.12.1-7), libblkid-dev (= 2.41.3-3), libblkid1 (= 2.41.3-3), libboost-atomic1.83-dev (= 1.83.0-5+b1), libboost-atomic1.83.0 (= 1.83.0-5+b1), libboost-chrono1.83-dev (= 1.83.0-5+b1), libboost-chrono1.83.0t64 (= 1.83.0-5+b1), libboost-date-time1.83-dev (= 1.83.0-5+b1), libboost-date-time1.83.0 (= 1.83.0-5+b1), libboost-dev (= 1.83.0.2+b2), libboost-iostreams-dev (= 1.83.0.2+b2), libboost-iostreams1.83-dev (= 1.83.0-5+b1), libboost-iostreams1.83.0 (= 1.83.0-5+b1), libboost-numpy-dev (= 1.83.0.2+b2), libboost-numpy1.83-dev (= 1.83.0-5+b1), libboost-numpy1.83.0 (= 1.83.0-5+b1), libboost-program-options-dev (= 1.83.0.2+b2), libboost-program-options1.83-dev (= 1.83.0-5+b1), libboost-program-options1.83.0 (= 1.83.0-5+b1), libboost-python-dev (= 1.83.0.2+b2), libboost-python1.83-dev (= 1.83.0-5+b1), libboost-python1.83.0 (= 1.83.0-5+b1), libboost-regex-dev (= 1.83.0.2+b2), libboost-regex1.83-dev (= 1.83.0-5+b1), libboost-regex1.83.0 (= 1.83.0-5+b1), libboost-serialization1.83-dev (= 1.83.0-5+b1), libboost-serialization1.83.0 (= 1.83.0-5+b1), libboost-system-dev (= 1.83.0.2+b2), libboost-system1.83-dev (= 1.83.0-5+b1), libboost-system1.83.0 (= 1.83.0-5+b1), libboost-thread-dev (= 1.83.0.2+b2), libboost-thread1.83-dev (= 1.83.0-5+b1), libboost-thread1.83.0 (= 1.83.0-5+b1), libboost1.83-dev (= 1.83.0-5+b1), libbrotli-dev (= 1.1.0-2+b9), libbrotli1 (= 1.1.0-2+b9), libbsd0 (= 0.12.2-2), libbz2-1.0 (= 1.0.8-6), libbz2-dev (= 1.0.8-6), libc-bin (= 2.42-7), libc-dev-bin (= 2.42-7), libc-gconv-modules-extra (= 2.42-7), libc6 (= 2.42-7), libc6-dev (= 2.42-7), libcairo-gobject2 (= 1.18.4-3), libcairo-script-interpreter2 (= 1.18.4-3), libcairo2 (= 1.18.4-3), libcairo2-dev (= 1.18.4-3), libcap-ng0 (= 0.8.5-4+b2), libcap2 (= 1:2.75-10+b5), libcatch2-dev (= 3.7.1-0.6), libcc1-0 (= 15.2.0-12), libclang-common-21-dev (= 1:21.1.8-1+b1), libclang-cpp21 (= 1:21.1.8-1+b1), libclang1-21 (= 1:21.1.8-1+b1), libcom-err2 (= 1.47.2-3+b8), libcommons-logging-java (= 1.3.0-2), libcommons-parent-java (= 56-1), libcoordgen-dev (= 3.0.2-3), libcoordgen3 (= 3.0.2-3), libcrypt1 (= 1:4.5.1-1), libctf-nobfd0 (= 2.45.50.20251209-1), libctf0 (= 2.45.50.20251209-1), libcurl4t64 (= 8.18.0-1), libdatrie1 (= 0.2.14-1), libdav1d7 (= 1.5.3-1), libdb5.3t64 (= 5.3.28+dfsg2-11), libde265-0 (= 1.0.16-1+b1), libdebconfclient0 (= 0.282+b2), libdebhelper-perl (= 13.29), libdeflate0 (= 1.23-2), libdpkg-perl (= 1.23.3), libedit2 (= 3.1-20251016-1), libeigen3-dev (= 3.4.0-5), libelf1t64 (= 0.194-1), libexpat1 (= 2.7.3-1), libexpat1-dev (= 2.7.3-1), libffi-dev (= 3.5.2-3), libffi8 (= 3.5.2-3), libfftw3-double3 (= 3.3.10-2+b1), libfile-stripnondeterminism-perl (= 1.15.0-1), libfmt10 (= 10.1.1+ds1-4), libfontbox-java (= 1:1.8.16-5), libfontconfig-dev (= 2.17.1-3), libfontconfig1 (= 2.17.1-3), libfontenc1 (= 1:1.1.8-1+b2), libfreetype-dev (= 2.14.1+dfsg-2), libfreetype6 (= 2.14.1+dfsg-2), libfribidi0 (= 1.0.16-5), libgav1-2 (= 0.20.0-2), libgc1 (= 1:8.2.10-1), libgcc-15-dev (= 15.2.0-12), libgcc-s1 (= 15.2.0-12), libgdbm-compat4t64 (= 1.26-1), libgdbm6t64 (= 1.26-1), libgdk-pixbuf-2.0-0 (= 2.44.4+dfsg-1), libgdk-pixbuf2.0-common (= 2.44.4+dfsg-1), libgfortran5 (= 15.2.0-12), libgio-2.0-dev (= 2.86.3-4), libgio-2.0-dev-bin (= 2.86.3-4), libgirepository-2.0-0 (= 2.86.3-4), libglib2.0-0t64 (= 2.86.3-4), libglib2.0-bin (= 2.86.3-4), libglib2.0-data (= 2.86.3-4), libglib2.0-dev (= 2.86.3-4), libglib2.0-dev-bin (= 2.86.3-4), libgmp10 (= 2:6.3.0+dfsg-5), libgnutls30t64 (= 3.8.11-3), libgomp1 (= 15.2.0-12), libgprofng0 (= 2.45.50.20251209-1), libgraphite2-3 (= 1.3.14-11), libgssapi-krb5-2 (= 1.22.1-2), libharfbuzz0b (= 12.3.0-4), libheif-plugin-dav1d (= 1.20.2-2+b4), libheif-plugin-libde265 (= 1.20.2-2+b4), libheif1 (= 1.20.2-2+b4), libhogweed6t64 (= 3.10.2-1), libhwasan0 (= 15.2.0-12), libice-dev (= 2:1.1.1-1), libice6 (= 2:1.1.1-1), libicu-dev (= 76.1-4), libicu76 (= 76.1-4), libidn2-0 (= 2.3.8-4), libimagequant0 (= 4.4.1-1), libinchi-dev (= 1.07.3+dfsg-1), libinchi1.07 (= 1.07.3+dfsg-1), libio-pty-perl (= 1:1.20-1+b3), libipc-run-perl (= 20250809.0-1), libisl23 (= 0.27-1), libitm1 (= 15.2.0-12), libjansson4 (= 2.14-2+b4), libjbig0 (= 2.1-6.1+b2), libjpeg62-turbo (= 1:2.1.5-4), libjs-sphinxdoc (= 8.2.3-12), libjson-perl (= 4.10000-1), libjsoncpp26 (= 1.9.6-5), libk5crypto3 (= 1.22.1-2), libkeyutils1 (= 1.6.3-6), libkpathsea6 (= 2025.20250727.75242+ds-5), libkrb5-3 (= 1.22.1-2), libkrb5support0 (= 1.22.1-2), liblapack3 (= 3.12.1-7), liblcms2-2 (= 2.17-1), libldap2 (= 2.6.10+dfsg-1), liblerc4 (= 4.0.0+ds-5), libllvm21 (= 1:21.1.8-1+b1), liblqr-1-0 (= 0.4.2-2.2), liblsan0 (= 15.2.0-12), libltdl7 (= 2.5.4-9), liblua5.4-0 (= 5.4.8-1), liblz4-1 (= 1.10.0-6), liblzma-dev (= 5.8.2-1), liblzma5 (= 5.8.2-1), liblzo2-2 (= 2.10-3+b1), libmaeparser-dev (= 1.3.3-3), libmaeparser1 (= 1.3.3-3), libmagic-mgc (= 1:5.46-5), libmagic1t64 (= 1:5.46-5), libmagickcore-7.q16-10 (= 8:7.1.2.12+dfsg1-1), libmagickwand-7.q16-10 (= 8:7.1.2.12+dfsg1-1), libmd0 (= 1.1.0-2+b1), libmount-dev (= 2.41.3-3), libmount1 (= 2.41.3-3), libmpc3 (= 1.3.1-2), libmpfi0 (= 1.5.4+ds-4), libmpfr6 (= 4.2.2-2), libncurses-dev (= 6.6+20251231-1), libncurses6 (= 6.6+20251231-1), libncursesw6 (= 6.6+20251231-1), 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-ossl0 (= 1.16.0-1), libnuma1 (= 2.0.19-1), libobjc-15-dev (= 15.2.0-12), libobjc4 (= 15.2.0-12), libopenjp2-7 (= 2.5.4-1), 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), libpango-1.0-0 (= 1.57.0-1), libpangocairo-1.0-0 (= 1.57.0-1), libpangoft2-1.0-0 (= 1.57.0-1), libpaper-utils (= 2.2.5-0.3+b3), libpaper2 (= 2.2.5-0.3+b3), libpcre2-16-0 (= 10.46-1), libpcre2-32-0 (= 10.46-1), libpcre2-8-0 (= 10.46-1), libpcre2-dev (= 10.46-1), libpcre2-posix3 (= 10.46-1), libpdfbox-java (= 1:1.8.16-5), libperl5.40 (= 5.40.1-7), libpfm4 (= 4.13.0+git106-g3e4031b-1), libpipeline1 (= 1.5.8-2), libpixman-1-0 (= 0.46.4-1), libpixman-1-dev (= 0.46.4-1), libpkgconf3 (= 1.8.1-4), libpng-dev (= 1.6.53-1), libpng16-16t64 (= 1.6.53-1), libpotrace0 (= 1.16-2+b2), libpq-dev (= 18.1-2), libpq5 (= 18.1-2), libproc2-0 (= 2:4.0.4-9), libpsl5t64 (= 0.21.2-1.1+b1), libptexenc1 (= 2025.20250727.75242+ds-5), libpython3-dev (= 3.13.9-3), libpython3-stdlib (= 3.13.9-3), 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), libraqm0 (= 0.10.3-1), librav1e0.8 (= 0.8.1-7), libraw23t64 (= 0.21.5b-1), libreadline8t64 (= 8.3-3), librhash1 (= 1.4.6-1.1), librsvg2-2 (= 2.61.3+dfsg-3), librsvg2-bin (= 2.61.3+dfsg-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), libselinux-dev (= 3.9-4+b1), libselinux1 (= 3.9-4+b1), libsemanage-common (= 3.9-1), libsemanage2 (= 3.9-1+b1), libsepol-dev (= 3.9-2), libsepol2 (= 3.9-2), libsframe2 (= 2.45.50.20251209-1), libsharpyuv0 (= 1.5.0-0.1), libsm-dev (= 2:1.2.6-1), libsm6 (= 2:1.2.6-1), libsmartcols1 (= 2.41.3-3), libspdlog1.15 (= 1:1.15.3+ds-1), libsqlite3-0 (= 3.46.1-8), libsqlite3-dev (= 3.46.1-8), libssh2-1t64 (= 1.11.1-1), libssl-dev (= 3.5.4-1), libssl3t64 (= 3.5.4-1), libstdc++-15-dev (= 15.2.0-12), libstdc++6 (= 15.2.0-12), libsvtav1enc2 (= 2.3.0+dfsg-1), libsynctex2 (= 2025.20250727.75242+ds-5), libsysprof-capture-4-dev (= 49.0-5), libsystemd0 (= 259-1), libtasn1-6 (= 4.20.0-2), libteckit0 (= 2.5.13+ds-1), libtexlua53-5 (= 2025.20250727.75242+ds-5), libtext-charwidth-perl (= 0.04-11+b4), libtext-wrapi18n-perl (= 0.06-10), libthai-data (= 0.1.30-1), libthai0 (= 0.1.30-1), libtiff6 (= 4.7.1-1), libtinfo6 (= 6.6+20251231-1), libtool (= 2.5.4-9), libtsan2 (= 15.2.0-12), libubsan1 (= 15.2.0-12), libuchardet0 (= 0.0.8-2), libudev1 (= 259-1), libunistring5 (= 1.3-2), libuuid1 (= 2.41.3-3), libuv1t64 (= 1.51.0-2), libwebp7 (= 1.5.0-0.1), libwebpdemux2 (= 1.5.0-0.1), libwebpmux3 (= 1.5.0-0.1), libx11-6 (= 2:1.8.12-1), libx11-data (= 2:1.8.12-1), libx11-dev (= 2:1.8.12-1), libxapian30 (= 1.4.29-3), libxau-dev (= 1:1.0.11-1), libxau6 (= 1:1.0.11-1), libxaw7 (= 2:1.0.16-1), libxcb-render0 (= 1.17.0-2+b1), libxcb-render0-dev (= 1.17.0-2+b1), libxcb-shm0 (= 1.17.0-2+b1), libxcb-shm0-dev (= 1.17.0-2+b1), libxcb1 (= 1.17.0-2+b1), libxcb1-dev (= 1.17.0-2+b1), libxdmcp-dev (= 1:1.1.5-2), libxdmcp6 (= 1:1.1.5-2), libxext-dev (= 2:1.3.4-1+b3), libxext6 (= 2:1.3.4-1+b3), libxi6 (= 2:1.8.2-2), libxml2-16 (= 2.15.1+dfsg-2+b1), libxml2-dev (= 2.15.1+dfsg-2+b1), libxmu6 (= 2:1.1.3-4), libxpm4 (= 1:3.5.17-1+b3), libxrender-dev (= 1:0.9.12-1), libxrender1 (= 1:0.9.12-1), libxt6t64 (= 1:1.2.1-1.3), libxxhash0 (= 0.8.3-2), libyaml-0-2 (= 0.2.5-2+b1), libyuv0 (= 0.0.1922.20260106-1), libz3-4 (= 4.13.3-1), libz3-dev (= 4.13.3-1), libzstd1 (= 1.5.7+dfsg-3), libzzip-0-13t64 (= 0.13.78+dfsg.1-0.2), linux-libc-dev (= 6.18.3-1), llvm-21 (= 1:21.1.8-1+b1), llvm-21-dev (= 1:21.1.8-1+b1), llvm-21-linker-tools (= 1:21.1.8-1+b1), llvm-21-runtime (= 1:21.1.8-1+b1), llvm-21-tools (= 1:21.1.8-1+b1), lmodern (= 2.005-1), login.defs (= 1:4.19.0-4), m4 (= 1.4.20-2), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20250131-2), media-types (= 14.0.0), native-architecture (= 0.2.6), ncurses-base (= 6.6+20251231-1), ncurses-bin (= 6.6+20251231-1), netbase (= 6.5), openssl (= 3.5.4-1), openssl-provider-legacy (= 3.5.4-1), pandoc (= 3.1.11.1+ds-4), pandoc-data (= 3.1.11.1-3), passwd (= 1:4.19.0-4), patch (= 2.8-2), perl (= 5.40.1-7), perl-base (= 5.40.1-7), perl-modules-5.40 (= 5.40.1-7), pkgconf (= 1.8.1-4), pkgconf-bin (= 1.8.1-4), po-debconf (= 1.0.22), postgresql-client-18 (= 18.1-2), postgresql-client-common (= 287), postgresql-common (= 287), postgresql-common-dev (= 287), postgresql-server-dev-18 (= 18.1-2), postgresql-server-dev-all (= 287), preview-latex-style (= 13.2-1.1), procps (= 2:4.0.4-9), python-babel-localedata (= 2.17.0-2), python3 (= 3.13.9-3), python3-alabaster (= 0.7.16-0.1), python3-babel (= 2.17.0-2), python3-certifi (= 2026.1.4+ds-1), python3-chardet (= 5.2.0+dfsg-2), python3-charset-normalizer (= 3.4.4-2), python3-commonmark (= 0.9.1-8), python3-dateutil (= 2.9.0-4), python3-defusedxml (= 0.7.1-3), python3-dev (= 3.13.9-3), python3-docutils (= 0.22.4+dfsg-1), python3-greenlet (= 3.2.4-3), python3-idna (= 3.10-1), python3-imagesize (= 1.4.1-1), python3-iniconfig (= 2.1.0-2), python3-jinja2 (= 3.1.6-1), python3-linkify-it (= 2.0.3-1), python3-markdown-it (= 3.0.0-3), python3-markupsafe (= 3.0.3-1+b1), python3-mdit-py-plugins (= 0.5.0-1), python3-mdurl (= 0.1.2-1), python3-minimal (= 3.13.9-3), python3-myst-parser (= 4.0.1-1), python3-numpy (= 1:2.3.5+ds-3), python3-numpy-dev (= 1:2.3.5+ds-3), python3-packaging (= 25.0-2), python3-pandas (= 2.3.3+dfsg-3), python3-pandas-lib (= 2.3.3+dfsg-3), python3-pil (= 12.0.0-1+b1), python3-pluggy (= 1.6.0-2), python3-pygments (= 2.19.2+dfsg-1), python3-pytest (= 9.0.2-2), python3-pytz (= 2025.2-5), python3-recommonmark (= 0.7.1+ds-8), python3-requests (= 2.32.5+dfsg-1), python3-roman-numerals (= 4.1.0-1), python3-snowballstemmer (= 3.0.1-1), python3-sphinx (= 8.2.3-12), python3-sqlalchemy (= 2.0.45+ds1-1), python3-typing-extensions (= 4.15.0-2), python3-uc-micro (= 1.0.3-1), python3-urllib3 (= 2.5.0-1.1), python3-yaml (= 6.0.3-1), python3.13 (= 3.13.11-1+b1), python3.13-dev (= 3.13.11-1+b1), python3.13-minimal (= 3.13.11-1+b1), rapidjson-dev (= 1.1.0+dfsg2-7.6), readline-common (= 8.3-3), rpcsvc-proto (= 1.4.3-1+b1), sed (= 4.9-2+b1), sensible-utils (= 0.0.26), sgml-base (= 1.31+nmu1), shared-mime-info (= 2.4-5+b3), sphinx-common (= 8.2.3-12), ssl-cert (= 1.1.3), sysvinit-utils (= 3.15-6), t1utils (= 1.41-4+b1), tar (= 1.35+dfsg-3.1), tex-common (= 6.20), tex-gyre (= 20180621-7), texlive-base (= 2025.20251127-1), texlive-binaries (= 2025.20250727.75242+ds-5), texlive-fonts-recommended (= 2025.20251127-1), texlive-latex-base (= 2025.20251127-1), texlive-latex-extra (= 2025.20251127-2), texlive-latex-recommended (= 2025.20251127-1), texlive-luatex (= 2025.20251127-1), texlive-pictures (= 2025.20251127-1), tzdata (= 2025c-3), ucf (= 3.0052), util-linux (= 2.41.3-3), uuid-dev (= 2.41.3-3), x11-common (= 1:7.7+26), x11proto-dev (= 2024.1-1), xdg-utils (= 1.2.1-2), xfonts-encodings (= 1:1.0.4-2.2), xfonts-utils (= 1:7.7+7), xml-core (= 0.19), xorg-sgml-doctools (= 1:1.11-1.1), xtrans-dev (= 1.6.0-1), xz-utils (= 5.8.2-1), zlib1g (= 1:1.3.dfsg+really1.3.1-1+b2), zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1+b2) Environment: DEB_BUILD_OPTIONS="parallel=8" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" SOURCE_DATE_EPOCH="1761040834" +------------------------------------------------------------------------------+ | Package contents Fri, 16 Jan 2026 05:22:21 +0000 | +------------------------------------------------------------------------------+ librdkit-dev_202503.6-3_arm64.deb --------------------------------- new Debian package, version 2.0. size 494456 bytes: control archive=10916 bytes. 1505 bytes, 37 lines control 32095 bytes, 376 lines md5sums Package: librdkit-dev Source: rdkit Version: 202503.6-3 Architecture: arm64 Maintainer: Debichem Team Installed-Size: 2785 Depends: librdkit1t64 (= 202503.6-3) Section: libdevel Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software (development files) RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . This package contains the header files. drwxr-xr-x root/root 0 2025-10-21 10:00 ./ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/Catalogs/ -rw-r--r-- root/root 15921 2025-08-29 13:10 ./usr/include/rdkit/Catalogs/Catalog.h -rw-r--r-- root/root 1384 2025-08-29 13:10 ./usr/include/rdkit/Catalogs/CatalogEntry.h -rw-r--r-- root/root 1243 2025-08-29 13:10 ./usr/include/rdkit/Catalogs/CatalogParams.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/ChemicalFeatures/ -rw-r--r-- root/root 1052 2025-08-29 13:10 ./usr/include/rdkit/ChemicalFeatures/ChemicalFeature.h -rw-r--r-- root/root 2936 2025-08-29 13:10 ./usr/include/rdkit/ChemicalFeatures/FreeChemicalFeature.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/DataManip/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/DataManip/MetricMatrixCalc/ -rw-r--r-- root/root 1867 2025-08-29 13:10 ./usr/include/rdkit/DataManip/MetricMatrixCalc/MetricFuncs.h -rw-r--r-- root/root 3532 2025-08-29 13:10 ./usr/include/rdkit/DataManip/MetricMatrixCalc/MetricMatrixCalc.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/DataStructs/ -rw-r--r-- root/root 11731 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/BitOps.h -rw-r--r-- root/root 2509 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/BitVect.h -rw-r--r-- root/root 1120 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/BitVectUtils.h -rw-r--r-- root/root 584 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/BitVects.h -rw-r--r-- root/root 897 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/DatastructsException.h -rw-r--r-- root/root 2775 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/DatastructsStreamOps.h -rw-r--r-- root/root 872 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/DiscreteDistMat.h -rw-r--r-- root/root 4395 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/DiscreteValueVect.h -rw-r--r-- root/root 3480 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/ExplicitBitVect.h -rw-r--r-- root/root 9536 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/FPBReader.h -rw-r--r-- root/root 7562 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/MultiFPBReader.h -rw-r--r-- root/root 4117 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/RealValueVect.h -rw-r--r-- root/root 3477 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/SparseBitVect.h -rw-r--r-- root/root 16947 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/SparseIntVect.h -rw-r--r-- root/root 1296 2025-08-29 13:10 ./usr/include/rdkit/DataStructs/base64.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/DistGeom/ -rw-r--r-- root/root 3225 2025-08-29 13:10 ./usr/include/rdkit/DistGeom/BoundsMatrix.h -rw-r--r-- root/root 2001 2025-08-29 13:10 ./usr/include/rdkit/DistGeom/ChiralSet.h -rw-r--r-- root/root 2964 2025-08-29 13:10 ./usr/include/rdkit/DistGeom/ChiralViolationContribs.h -rw-r--r-- root/root 8447 2025-08-29 13:10 ./usr/include/rdkit/DistGeom/DistGeomUtils.h -rw-r--r-- root/root 2194 2025-08-29 13:10 ./usr/include/rdkit/DistGeom/DistViolationContribs.h -rw-r--r-- root/root 2507 2025-08-29 13:10 ./usr/include/rdkit/DistGeom/FourthDimContribs.h -rw-r--r-- root/root 1310 2025-08-29 13:10 ./usr/include/rdkit/DistGeom/TriangleSmooth.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/Features/ -rw-r--r-- root/root 2898 2025-08-29 13:10 ./usr/include/rdkit/Features/Feature.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/ForceField/ -rw-r--r-- root/root 2174 2025-08-29 13:10 ./usr/include/rdkit/ForceField/AngleConstraint.h -rw-r--r-- root/root 3923 2025-08-29 13:10 ./usr/include/rdkit/ForceField/AngleConstraints.h -rw-r--r-- root/root 1116 2025-08-29 13:10 ./usr/include/rdkit/ForceField/Contrib.h -rw-r--r-- root/root 1917 2025-08-29 13:10 ./usr/include/rdkit/ForceField/DistanceConstraint.h -rw-r--r-- root/root 3519 2025-08-29 13:10 ./usr/include/rdkit/ForceField/DistanceConstraints.h -rw-r--r-- root/root 9291 2025-08-29 13:10 ./usr/include/rdkit/ForceField/ForceField.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/ForceField/MMFF/ -rw-r--r-- root/root 2958 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/AngleBend.h -rw-r--r-- root/root 603 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/AngleConstraint.h -rw-r--r-- root/root 2312 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/BondStretch.h -rw-r--r-- root/root 663 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/Contribs.h -rw-r--r-- root/root 618 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/DistanceConstraint.h -rw-r--r-- root/root 5271 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/Nonbonded.h -rw-r--r-- root/root 2448 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/OopBend.h -rw-r--r-- root/root 35334 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/Params.h -rw-r--r-- root/root 618 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/PositionConstraint.h -rw-r--r-- root/root 2490 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/StretchBend.h -rw-r--r-- root/root 3143 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/TorsionAngle.h -rw-r--r-- root/root 613 2025-08-29 13:10 ./usr/include/rdkit/ForceField/MMFF/TorsionConstraint.h -rw-r--r-- root/root 1614 2025-08-29 13:10 ./usr/include/rdkit/ForceField/PositionConstraint.h -rw-r--r-- root/root 2630 2025-08-29 13:10 ./usr/include/rdkit/ForceField/TorsionConstraint.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/ForceField/UFF/ -rw-r--r-- root/root 3539 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/AngleBend.h -rw-r--r-- root/root 599 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/AngleConstraint.h -rw-r--r-- root/root 2573 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/BondStretch.h -rw-r--r-- root/root 623 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/Contribs.h -rw-r--r-- root/root 614 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/DistanceConstraint.h -rw-r--r-- root/root 1810 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/Inversion.h -rw-r--r-- root/root 3791 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/Inversions.h -rw-r--r-- root/root 2875 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/Nonbonded.h -rw-r--r-- root/root 4421 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/Params.h -rw-r--r-- root/root 614 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/PositionConstraint.h -rw-r--r-- root/root 4577 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/TorsionAngle.h -rw-r--r-- root/root 609 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/TorsionConstraint.h -rw-r--r-- root/root 1368 2025-08-29 13:10 ./usr/include/rdkit/ForceField/UFF/Utils.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/Geometry/ -rw-r--r-- root/root 1672 2025-08-29 13:10 ./usr/include/rdkit/Geometry/Grid3D.h -rw-r--r-- root/root 2027 2025-08-29 13:10 ./usr/include/rdkit/Geometry/GridUtils.h -rw-r--r-- root/root 449 2025-08-29 13:10 ./usr/include/rdkit/Geometry/Transform.h -rw-r--r-- root/root 2599 2025-08-29 13:10 ./usr/include/rdkit/Geometry/Transform2D.h -rw-r--r-- root/root 2915 2025-08-29 13:10 ./usr/include/rdkit/Geometry/Transform3D.h -rw-r--r-- root/root 8637 2025-08-29 13:10 ./usr/include/rdkit/Geometry/UniformGrid3D.h -rw-r--r-- root/root 8108 2025-08-29 13:10 ./usr/include/rdkit/Geometry/UniformRealValueGrid3D.h -rw-r--r-- root/root 3338 2025-08-29 13:10 ./usr/include/rdkit/Geometry/Utils.h -rw-r--r-- root/root 15628 2025-08-29 13:10 ./usr/include/rdkit/Geometry/point.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/Abbreviations/ -rw-r--r-- root/root 5462 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Abbreviations/Abbreviations.h -rw-r--r-- root/root 15694 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Atom.h -rw-r--r-- root/root 5673 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/AtomIterators.h -rw-r--r-- root/root 1513 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Atropisomers.h -rw-r--r-- root/root 12919 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Bond.h -rw-r--r-- root/root 2354 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/BondIterators.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/CIPLabeler/ -rw-r--r-- root/root 2836 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/CIPLabeler/CIPLabeler.h -rw-r--r-- root/root 628 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/CIPLabeler/TooManyNodesException.h -rw-r--r-- root/root 4425 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Canon.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ChemReactions/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/ -rw-r--r-- root/root 4684 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/CartesianProduct.h -rw-r--r-- root/root 6461 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/Enumerate.h -rw-r--r-- root/root 7015 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerateBase.h -rw-r--r-- root/root 2599 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h -rw-r--r-- root/root 2728 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h -rw-r--r-- root/root 8572 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h -rw-r--r-- root/root 5284 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/RandomSample.h -rw-r--r-- root/root 5940 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h -rw-r--r-- root/root 2874 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ChemReactions/PreprocessRxn.h -rw-r--r-- root/root 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./usr/include/rdkit/GraphMol/Descriptors/PMI.h -rw-r--r-- root/root 4874 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Descriptors/Property.h -rw-r--r-- root/root 2159 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Descriptors/RDF.h -rw-r--r-- root/root 3035 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Descriptors/RegisterDescriptor.h -rw-r--r-- root/root 4874 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Descriptors/USRDescriptor.h -rw-r--r-- root/root 2178 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Descriptors/WHIM.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/DetermineBonds/ -rw-r--r-- root/root 5211 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/DetermineBonds/DetermineBonds.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/DistGeomHelpers/ -rw-r--r-- root/root 3267 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h -rw-r--r-- root/root 24564 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/DistGeomHelpers/Embedder.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/EnumerateStereoisomers/ -rw-r--r-- root/root 4870 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/EnumerateStereoisomers/EnumerateStereoisomers.h -rw-r--r-- root/root 3566 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/EnumerateStereoisomers/Flippers.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/FMCS/ -rw-r--r-- root/root 9796 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FMCS/FMCS.h -rw-r--r-- root/root 1343 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FMCS/Graph.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/FileParsers/ -rw-r--r-- root/root 6676 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/CDXMLParser.h -rw-r--r-- root/root 10790 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/FileParserUtils.h -rw-r--r-- root/root 21493 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/FileParsers.h -rw-r--r-- root/root 10856 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/FileWriters.h -rw-r--r-- root/root 6504 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/GeneralFileReader.h -rw-r--r-- root/root 4613 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/MolFileStereochem.h -rw-r--r-- root/root 16139 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/MolSupplier.h -rw-r--r-- root/root 18434 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/MolSupplier.v1API.h -rw-r--r-- root/root 14218 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/MolWriters.h -rw-r--r-- root/root 6921 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/MultithreadedMolSupplier.h -rw-r--r-- root/root 5531 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/MultithreadedSDMolSupplier.h -rw-r--r-- root/root 5418 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h -rw-r--r-- root/root 9773 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/PNGParser.h -rw-r--r-- root/root 4093 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/SequenceParsers.h -rw-r--r-- root/root 1360 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FileParsers/SequenceWriters.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/FilterCatalog/ -rw-r--r-- root/root 9486 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalog.h -rw-r--r-- root/root 9023 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalogEntry.h -rw-r--r-- root/root 5334 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterMatcherBase.h -rw-r--r-- root/root 20279 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterMatchers.h -rw-r--r-- root/root 2474 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/Fingerprints/ -rw-r--r-- root/root 7309 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/AtomPairGenerator.h -rw-r--r-- root/root 12649 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/AtomPairs.h -rw-r--r-- root/root 19504 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/FingerprintGenerator.h -rw-r--r-- root/root 5558 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/FingerprintUtil.h -rw-r--r-- root/root 6919 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/Fingerprints.h -rw-r--r-- root/root 774 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/MACCS.h -rw-r--r-- root/root 11133 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/MHFP.h -rw-r--r-- root/root 9725 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/MorganFingerprints.h -rw-r--r-- root/root 12594 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/MorganGenerator.h -rw-r--r-- root/root 6670 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/RDKitFPGenerator.h -rw-r--r-- root/root 5304 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/ -rw-r--r-- root/root 3685 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleContribs.h -rw-r--r-- root/root 2258 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h -rw-r--r-- root/root 2177 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h -rw-r--r-- root/root 5229 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/FFConvenience.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/ -rw-r--r-- root/root 10191 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h -rw-r--r-- root/root 5376 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/Builder.h -rw-r--r-- root/root 4305 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/MMFF.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/ -rw-r--r-- root/root 2111 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h -rw-r--r-- root/root 5050 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/Builder.h -rw-r--r-- root/root 3360 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/UFF.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/FragCatalog/ -rw-r--r-- root/root 817 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FragCatalog/FragCatGenerator.h -rw-r--r-- root/root 3094 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FragCatalog/FragCatParams.h -rw-r--r-- root/root 3602 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FragCatalog/FragCatalogEntry.h -rw-r--r-- root/root 2605 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FragCatalog/FragCatalogUtils.h -rw-r--r-- root/root 1018 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/FragCatalog/FragFPGenerator.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/GeneralizedSubstruct/ -rw-r--r-- root/root 4309 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/GeneralizedSubstruct/XQMol.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/GenericGroups/ -rw-r--r-- root/root 19934 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/GenericGroups/GenericGroups.h -rw-r--r-- root/root 479 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/GraphMol.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MMPA/ -rw-r--r-- root/root 3391 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MMPA/MMPA.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MarvinParse/ -rw-r--r-- root/root 8338 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MarvinParse/MarvinParser.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolAlign/ -rw-r--r-- root/root 14747 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolAlign/AlignMolecules.h -rw-r--r-- root/root 13596 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolAlign/O3AAlignMolecules.h -rw-r--r-- root/root 5903 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolBundle.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolCatalog/ -rw-r--r-- root/root 449 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolCatalog/MolCatalog.h -rw-r--r-- root/root 2926 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolCatalog/MolCatalogEntry.h -rw-r--r-- root/root 1120 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolCatalog/MolCatalogParams.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/ -rw-r--r-- root/root 2126 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/FeatureParser.h -rw-r--r-- root/root 3290 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeature.h -rw-r--r-- root/root 2142 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h -rw-r--r-- root/root 2783 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolDraw2D/ -rw-r--r-- root/root 26533 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2D.h -rw-r--r-- root/root 3415 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DCairo.h -rw-r--r-- root/root 16793 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DHelpers.h -rw-r--r-- root/root 2332 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DJS.h -rw-r--r-- root/root 3210 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DSVG.h -rw-r--r-- root/root 11361 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DUtils.h -rw-r--r-- root/root 3347 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2Dwx.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolEnumerator/ -rw-r--r-- root/root 4981 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolEnumerator/LinkNode.h -rw-r--r-- root/root 9311 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolEnumerator/MolEnumerator.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolHash/ -rw-r--r-- root/root 363 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolHash/MolHash.h -rw-r--r-- root/root 2031 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolHash/nmmolhash.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolInteractionFields/ -rw-r--r-- root/root 22324 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolInteractionFields/MIFDescriptors.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolInterchange/ -rw-r--r-- root/root 3291 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolInterchange/MolInterchange.h -rw-r--r-- root/root 2724 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolInterchange/details.h -rw-r--r-- root/root 53997 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolOps.h -rw-r--r-- root/root 11390 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolPickler.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolProcessing/ -rw-r--r-- root/root 1275 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolProcessing/MolProcessing.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolStandardize/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/ -rw-r--r-- root/root 1488 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h -rw-r--r-- root/root 1796 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h -rw-r--r-- root/root 1141 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h -rw-r--r-- root/root 5681 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/Charge.h -rw-r--r-- root/root 3627 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/Fragment.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/ -rw-r--r-- root/root 1584 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h -rw-r--r-- root/root 1750 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h -rw-r--r-- root/root 1074 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h -rw-r--r-- root/root 2981 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/Metal.h -rw-r--r-- root/root 12579 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/MolStandardize.h -rw-r--r-- root/root 3528 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/Normalize.h -rw-r--r-- root/root 10588 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/Pipeline.h -rw-r--r-- root/root 17988 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/Tautomer.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/ -rw-r--r-- root/root 1568 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h -rw-r--r-- root/root 2736 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h -rw-r--r-- root/root 1530 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/ -rw-r--r-- root/root 1525 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h -rw-r--r-- root/root 2131 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h -rw-r--r-- root/root 1161 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h -rw-r--r-- root/root 11341 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolStandardize/Validate.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/MolTransforms/ -rw-r--r-- root/root 9519 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MolTransforms/MolTransforms.h -rw-r--r-- root/root 4996 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/MonomerInfo.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/PartialCharges/ -rw-r--r-- root/root 883 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/PartialCharges/GasteigerCharges.h -rw-r--r-- root/root 2612 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/PartialCharges/GasteigerParams.h -rw-r--r-- root/root 12217 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/PeriodicTable.h -rw-r--r-- root/root 5042 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/QueryAtom.h -rw-r--r-- root/root 4454 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/QueryBond.h -rw-r--r-- root/root 40822 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/QueryOps.h -rw-r--r-- root/root 852 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RDKitBase.h -rw-r--r-- root/root 581 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RDKitQueries.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/RGroupDecomposition/ -rw-r--r-- root/root 5130 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecomp.h -rw-r--r-- root/root 720 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecompJSONParsers.h -rw-r--r-- root/root 4322 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecompParams.h -rw-r--r-- root/root 27834 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ROMol.h -rw-r--r-- root/root 6808 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RWMol.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/RascalMCES/ -rw-r--r-- root/root 2593 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RascalMCES/RascalClusterOptions.h -rw-r--r-- root/root 2682 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RascalMCES/RascalMCES.h -rw-r--r-- root/root 4740 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RascalMCES/RascalOptions.h -rw-r--r-- root/root 5458 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RascalMCES/RascalResult.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ReducedGraphs/ -rw-r--r-- root/root 2712 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ReducedGraphs/ReducedGraphs.h -rw-r--r-- root/root 9598 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Resonance.h -rw-r--r-- root/root 10706 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/RingInfo.h -rw-r--r-- root/root 3460 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Rings.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/SLNParse/ -rw-r--r-- root/root 3418 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SLNParse/SLNAttribs.h -rw-r--r-- root/root 2796 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SLNParse/SLNParse.h -rw-r--r-- root/root 11545 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SLNParse/SLNParseOps.h -rw-r--r-- root/root 4232 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SanitException.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ScaffoldNetwork/ -rw-r--r-- root/root 6670 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/ShapeHelpers/ -rw-r--r-- root/root 2928 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ShapeHelpers/ShapeEncoder.h -rw-r--r-- root/root 11879 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/ShapeHelpers/ShapeUtils.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/SmilesParse/ -rw-r--r-- root/root 1569 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SmilesParse/CanonicalizeStereoGroups.h -rw-r--r-- root/root 3223 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SmilesParse/SmartsWrite.h -rw-r--r-- root/root 970 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SmilesParse/SmilesJSONParsers.h -rw-r--r-- root/root 9142 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SmilesParse/SmilesParse.h -rw-r--r-- root/root 3395 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SmilesParse/SmilesParseOps.h -rw-r--r-- root/root 15383 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SmilesParse/SmilesWrite.h -rw-r--r-- root/root 4019 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/StereoGroup.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/Subgraphs/ -rw-r--r-- root/root 2306 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Subgraphs/SubgraphUtils.h -rw-r--r-- root/root 6682 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Subgraphs/Subgraphs.h -rw-r--r-- root/root 10541 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SubstanceGroup.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/Substruct/ -rw-r--r-- root/root 10828 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Substruct/SubstructMatch.h -rw-r--r-- root/root 2171 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Substruct/SubstructUtils.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/SubstructLibrary/ -rw-r--r-- root/root 1458 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SubstructLibrary/PatternFactory.h -rw-r--r-- root/root 36428 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrary.h -rw-r--r-- root/root 8146 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/ -rw-r--r-- root/root 2612 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/SearchResults.h -rw-r--r-- root/root 3532 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/Synthon.h -rw-r--r-- root/root 6134 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSet.h -rw-r--r-- root/root 17007 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpace.h -rw-r--r-- root/root 2199 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpaceFingerprintSearcher.h -rw-r--r-- root/root 1721 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpaceRascalSearcher.h -rw-r--r-- root/root 5481 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.h -rw-r--r-- root/root 2904 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/SynthonSpaceSearch/SynthonSpaceSubstructureSearcher.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/TautomerQuery/ -rw-r--r-- root/root 5443 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/TautomerQuery/TautomerQuery.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/GraphMol/Trajectory/ -rw-r--r-- root/root 2259 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Trajectory/Snapshot.h -rw-r--r-- root/root 4447 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Trajectory/Trajectory.h -rw-r--r-- root/root 2464 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/atomic_data.h -rw-r--r-- root/root 373 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/details.h -rw-r--r-- root/root 5797 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/inchi.h -rw-r--r-- root/root 29273 2025-08-29 13:10 ./usr/include/rdkit/GraphMol/new_canon.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/Numerics/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/Numerics/Alignment/ -rw-r--r-- root/root 1605 2025-08-29 13:10 ./usr/include/rdkit/Numerics/Alignment/AlignPoints.h -rw-r--r-- root/root 10355 2025-08-29 13:10 ./usr/include/rdkit/Numerics/Conrec.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/Numerics/EigenSolvers/ -rw-r--r-- root/root 2106 2025-08-29 13:10 ./usr/include/rdkit/Numerics/EigenSolvers/PowerEigenSolver.h -rw-r--r-- root/root 10819 2025-08-29 13:10 ./usr/include/rdkit/Numerics/Matrix.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/Numerics/Optimizer/ -rw-r--r-- root/root 12364 2025-08-29 13:10 ./usr/include/rdkit/Numerics/Optimizer/BFGSOpt.h -rw-r--r-- root/root 2445 2025-08-29 13:10 ./usr/include/rdkit/Numerics/SquareMatrix.h -rw-r--r-- root/root 10168 2025-08-29 13:10 ./usr/include/rdkit/Numerics/SymmMatrix.h -rw-r--r-- root/root 8593 2025-08-29 13:10 ./usr/include/rdkit/Numerics/Vector.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/Query/ -rw-r--r-- root/root 1804 2025-08-29 13:10 ./usr/include/rdkit/Query/AndQuery.h -rw-r--r-- root/root 2666 2025-08-29 13:10 ./usr/include/rdkit/Query/EqualityQuery.h -rw-r--r-- root/root 2342 2025-08-29 13:10 ./usr/include/rdkit/Query/GreaterEqualQuery.h -rw-r--r-- root/root 2263 2025-08-29 13:10 ./usr/include/rdkit/Query/GreaterQuery.h -rw-r--r-- root/root 2316 2025-08-29 13:10 ./usr/include/rdkit/Query/LessEqualQuery.h -rw-r--r-- root/root 2239 2025-08-29 13:10 ./usr/include/rdkit/Query/LessQuery.h -rw-r--r-- root/root 2556 2025-08-29 13:10 ./usr/include/rdkit/Query/NullQueryAlgebra.h -rw-r--r-- root/root 1795 2025-08-29 13:10 ./usr/include/rdkit/Query/OrQuery.h -rw-r--r-- root/root 6855 2025-08-29 13:10 ./usr/include/rdkit/Query/Query.h -rw-r--r-- root/root 839 2025-08-29 13:10 ./usr/include/rdkit/Query/QueryObjects.h -rw-r--r-- root/root 3765 2025-08-29 13:10 ./usr/include/rdkit/Query/RangeQuery.h -rw-r--r-- root/root 2690 2025-08-29 13:10 ./usr/include/rdkit/Query/SetQuery.h -rw-r--r-- root/root 1883 2025-08-29 13:10 ./usr/include/rdkit/Query/XOrQuery.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/RDBoost/ -rw-r--r-- root/root 2236 2025-08-29 13:10 ./usr/include/rdkit/RDBoost/PySequenceHolder.h -rw-r--r-- root/root 13476 2025-08-29 13:10 ./usr/include/rdkit/RDBoost/Wrap.h -rw-r--r-- root/root 342 2025-08-29 13:10 ./usr/include/rdkit/RDBoost/boost_numpy.h -rw-r--r-- root/root 5719 2025-08-29 13:10 ./usr/include/rdkit/RDBoost/list_indexing_suite.hpp -rw-r--r-- root/root 212 2025-08-29 13:10 ./usr/include/rdkit/RDBoost/pyint_api.h -rw-r--r-- root/root 329 2025-08-29 13:10 ./usr/include/rdkit/RDBoost/python.h -rw-r--r-- root/root 18871 2025-08-29 13:10 ./usr/include/rdkit/RDBoost/python_streambuf.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/RDGeneral/ -rw-r--r-- root/root 1144 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/BadFileException.h -rw-r--r-- root/root 597 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/BetterEnums.h -rw-r--r-- root/root 3026 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/BoostEndInclude.h -rw-r--r-- root/root 4116 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/BoostStartInclude.h -rw-r--r-- root/root 3457 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/ConcurrentQueue.h -rw-r--r-- root/root 2290 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/ControlCHandler.h -rw-r--r-- root/root 10321 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/Dict.h -rw-r--r-- root/root 2155 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/Exceptions.h -rw-r--r-- root/root 1101 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/FileParseException.h -rw-r--r-- root/root 7330 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/Invariant.h -rw-r--r-- root/root 2199 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/LocaleSwitcher.h -rw-r--r-- root/root 6109 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/RDAny.h -rw-r--r-- root/root 1028 2025-10-21 10:00 ./usr/include/rdkit/RDGeneral/RDConfig.h -rw-r--r-- root/root 1335 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/RDExportMacros.h -rw-r--r-- root/root 4320 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/RDLog.h -rw-r--r-- root/root 5229 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/RDProps.h -rw-r--r-- root/root 917 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/RDThreads.h -rw-r--r-- root/root 15850 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/RDValue-doublemagic.h -rw-r--r-- root/root 15367 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/RDValue-taggedunion.h -rw-r--r-- root/root 9048 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/RDValue.h -rw-r--r-- root/root 1728 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/Ranking.h -rw-r--r-- root/root 17835 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/StreamOps.h -rw-r--r-- root/root 67566 2025-10-21 10:00 ./usr/include/rdkit/RDGeneral/enum.h -rw-r--r-- root/root 19273 2025-10-21 10:00 ./usr/include/rdkit/RDGeneral/export.h -rw-r--r-- root/root 3779 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/hanoiSort.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/RDGeneral/hash/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/RDGeneral/hash/detail/ -rw-r--r-- root/root 4451 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/hash/detail/float_functions.hpp -rw-r--r-- root/root 4929 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/hash/detail/hash_float.hpp -rw-r--r-- root/root 4138 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/hash/extensions.hpp -rw-r--r-- root/root 15699 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/hash/hash.hpp -rw-r--r-- root/root 1240 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/hash/hash_fwd.hpp -rw-r--r-- root/root 5844 2025-10-21 10:00 ./usr/include/rdkit/RDGeneral/test.h -rw-r--r-- root/root 17122 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/types.h -rw-r--r-- root/root 3081 2025-08-29 13:10 ./usr/include/rdkit/RDGeneral/utils.h -rw-r--r-- root/root 946 2025-10-21 10:00 ./usr/include/rdkit/RDGeneral/versions.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/RDStreams/ -rw-r--r-- root/root 430 2025-08-29 13:10 ./usr/include/rdkit/RDStreams/streams.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/include/rdkit/SimDivPickers/ -rw-r--r-- root/root 2720 2025-08-29 13:10 ./usr/include/rdkit/SimDivPickers/DistPicker.h -rw-r--r-- root/root 3695 2025-08-29 13:10 ./usr/include/rdkit/SimDivPickers/HierarchicalClusterPicker.h -rw-r--r-- root/root 14014 2025-08-29 13:10 ./usr/include/rdkit/SimDivPickers/LeaderPicker.h -rw-r--r-- root/root 10132 2025-08-29 13:10 ./usr/include/rdkit/SimDivPickers/MaxMinPicker.h drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/cmake/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/cmake/rdkit/ -rw-r--r-- root/root 1865 2025-10-21 10:00 ./usr/lib/cmake/rdkit/rdkit-config-version.cmake -rw-r--r-- root/root 1560 2025-10-21 10:00 ./usr/lib/cmake/rdkit/rdkit-config.cmake -rw-r--r-- root/root 33629 2025-10-21 10:00 ./usr/lib/cmake/rdkit/rdkit-targets-none.cmake -rw-r--r-- root/root 23556 2025-10-21 10:00 ./usr/lib/cmake/rdkit/rdkit-targets.cmake drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/cmake/rdkitpython/ -rw-r--r-- root/root 1865 2025-10-21 10:00 ./usr/lib/cmake/rdkitpython/rdkitpython-config-version.cmake -rw-r--r-- root/root 336 2025-10-21 10:00 ./usr/lib/cmake/rdkitpython/rdkitpython-config.cmake -rw-r--r-- root/root 865 2025-10-21 10:00 ./usr/lib/cmake/rdkitpython/rdkitpython-targets-none.cmake -rw-r--r-- root/root 5681 2025-10-21 10:00 ./usr/lib/cmake/rdkitpython/rdkitpython-targets.cmake lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitAbbreviations.so -> libRDKitAbbreviations.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitAlignment.so -> libRDKitAlignment.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitCIPLabeler.so -> libRDKitCIPLabeler.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitCatalogs.so -> libRDKitCatalogs.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitChemReactions.so -> libRDKitChemReactions.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitChemTransforms.so -> libRDKitChemTransforms.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitChemicalFeatures.so -> libRDKitChemicalFeatures.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitDataStructs.so -> libRDKitDataStructs.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitDepictor.so -> libRDKitDepictor.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitDeprotect.so -> libRDKitDeprotect.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitDescriptors.so -> libRDKitDescriptors.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitDetermineBonds.so -> libRDKitDetermineBonds.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitDistGeomHelpers.so -> libRDKitDistGeomHelpers.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitDistGeometry.so -> libRDKitDistGeometry.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitEigenSolvers.so -> libRDKitEigenSolvers.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitEnumerateStereoisomers.so -> libRDKitEnumerateStereoisomers.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitFMCS.so -> libRDKitFMCS.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitFileParsers.so -> libRDKitFileParsers.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitFilterCatalog.so -> libRDKitFilterCatalog.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitFingerprints.so -> libRDKitFingerprints.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitForceField.so -> libRDKitForceField.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitForceFieldHelpers.so -> libRDKitForceFieldHelpers.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitFragCatalog.so -> libRDKitFragCatalog.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitGeneralizedSubstruct.so -> libRDKitGeneralizedSubstruct.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitGenericGroups.so -> libRDKitGenericGroups.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitGraphMol.so -> libRDKitGraphMol.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitInfoTheory.so -> libRDKitInfoTheory.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMMPA.so -> libRDKitMMPA.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMarvinParser.so -> libRDKitMarvinParser.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolAlign.so -> libRDKitMolAlign.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolCatalog.so -> libRDKitMolCatalog.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolChemicalFeatures.so -> libRDKitMolChemicalFeatures.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolDraw2D.so -> libRDKitMolDraw2D.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolEnumerator.so -> libRDKitMolEnumerator.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolHash.so -> libRDKitMolHash.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolInteractionFields.so -> libRDKitMolInteractionFields.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolInterchange.so -> libRDKitMolInterchange.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolProcessing.so -> libRDKitMolProcessing.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolStandardize.so -> libRDKitMolStandardize.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitMolTransforms.so -> libRDKitMolTransforms.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitO3AAlign.so -> libRDKitO3AAlign.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitOptimizer.so -> libRDKitOptimizer.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitPartialCharges.so -> libRDKitPartialCharges.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitRDBoost.so -> libRDKitRDBoost.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitRDGeneral.so -> libRDKitRDGeneral.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitRDGeometryLib.so -> libRDKitRDGeometryLib.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitRDInchiLib.so -> libRDKitRDInchiLib.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitRDStreams.so -> libRDKitRDStreams.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitRGroupDecomposition.so -> libRDKitRGroupDecomposition.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitRascalMCES.so -> libRDKitRascalMCES.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitReducedGraphs.so -> libRDKitReducedGraphs.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitSLNParse.so -> libRDKitSLNParse.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitScaffoldNetwork.so -> libRDKitScaffoldNetwork.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitShapeHelpers.so -> libRDKitShapeHelpers.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitSimDivPickers.so -> libRDKitSimDivPickers.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitSmilesParse.so -> libRDKitSmilesParse.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitSubgraphs.so -> libRDKitSubgraphs.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitSubstructLibrary.so -> libRDKitSubstructLibrary.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitSubstructMatch.so -> libRDKitSubstructMatch.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitSynthonSpaceSearch.so -> libRDKitSynthonSpaceSearch.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitTautomerQuery.so -> libRDKitTautomerQuery.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitTrajectory.so -> libRDKitTrajectory.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitga.so -> libRDKitga.so.1 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKithc.so -> libRDKithc.so.1 drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/share/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/share/doc/ drwxr-xr-x root/root 0 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2.0. size 5247124 bytes: control archive=3560 bytes. 1921 bytes, 40 lines control 5271 bytes, 68 lines md5sums 3178 bytes, 64 lines shlibs 66 bytes, 2 lines triggers Package: librdkit1t64 Source: rdkit Version: 202503.6-3 Architecture: arm64 Maintainer: Debichem Team Installed-Size: 25970 Depends: libboost-iostreams1.83.0 (>= 1.83.0), libboost-python1.83.0 (>= 1.83.0), libboost-python1.83.0-py313, libboost-serialization1.83.0 (>= 1.83.0), libc6 (>= 2.38), libcairo2 (>= 1.4.10), libcoordgen3 (>= 3.0.2), libfreetype6 (>= 2.2.1), libgcc-s1 (>= 3.3), libinchi1.07 (>= 1.07.3+dfsg), libmaeparser1 (>= 1.3.3), libstdc++6 (>= 14) Breaks: coot (<< 1.1.15+dfsg-1), librdkit1 (<< 202503.6-3) Replaces: librdkit1 Provides: librdkit1 (= 202503.6-3) Section: libs Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software (shared libraries) RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . This package contains the shared libraries. drwxr-xr-x root/root 0 2025-10-21 10:00 ./ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/ lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitAbbreviations.so.1 -> libRDKitAbbreviations.so.1.2025.03.6 -rw-r--r-- root/root 198880 2025-10-21 10:00 ./usr/lib/libRDKitAbbreviations.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitAlignment.so.1 -> libRDKitAlignment.so.1.2025.03.6 -rw-r--r-- root/root 67768 2025-10-21 10:00 ./usr/lib/libRDKitAlignment.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitCIPLabeler.so.1 -> libRDKitCIPLabeler.so.1.2025.03.6 -rw-r--r-- root/root 265120 2025-10-21 10:00 ./usr/lib/libRDKitCIPLabeler.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-21 10:00 ./usr/lib/libRDKitCatalogs.so.1 -> libRDKitCatalogs.so.1.2025.03.6 -rw-r--r-- root/root 67528 2025-10-21 10:00 ./usr/lib/libRDKitCatalogs.so.1.2025.03.6 lrwxrwxrwx 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2025-10-21 09:54 ./usr/share/lintian/overrides/librdkit1t64 postgresql-18-rdkit-dbgsym_202503.6-3_arm64.deb ----------------------------------------------- new Debian package, version 2.0. size 1161124 bytes: control archive=544 bytes. 393 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: postgresql-18-rdkit-dbgsym Source: rdkit Version: 202503.6-3 Auto-Built-Package: debug-symbols Architecture: arm64 Maintainer: Debichem Team Installed-Size: 1544 Depends: postgresql-18-rdkit (= 202503.6-3) Section: debug Priority: optional Description: debug symbols for postgresql-18-rdkit Build-Ids: 94b35ed0489b5333842b6d1a32d67d9009f600cd drwxr-xr-x root/root 0 2025-10-21 10:00 ./ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/debug/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/debug/.build-id/94/ -rw-r--r-- root/root 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environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . 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Installed-Size: 29643 Depends: fonts-freefont-ttf, rdkit-data, python3-numpy2-abi0 | python3-numpy-abi9, python3 (<< 3.14), python3 (>= 3.13~), python3:any, libboost-numpy1.83.0 (>= 1.83.0), libboost-numpy1.83.0-py313, libboost-python1.83.0 (>= 1.83.0), libboost-python1.83.0-py313, libboost-serialization1.83.0 (>= 1.83.0), libc6 (>= 2.34), libcairo2 (>= 1.4.10), libcoordgen3 (>= 3.0.2), libgcc-s1 (>= 3.0), librdkit1t64 (>= 202503.6), libstdc++6 (>= 14) Suggests: rdkit-doc Section: python Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. drwxr-xr-x root/root 0 2025-10-21 10:00 ./ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/python3/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/python3/dist-packages/rdkit/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/python3/dist-packages/rdkit/Avalon/ -rw-r--r-- root/root 0 2025-08-29 13:10 ./usr/lib/python3/dist-packages/rdkit/Avalon/__init__.py drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/python3/dist-packages/rdkit/Chem/ -rw-r--r-- root/root 17005 2025-08-29 13:10 ./usr/lib/python3/dist-packages/rdkit/Chem/AllChem.py drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/ -rw-r--r-- root/root 5702 2025-08-29 13:10 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drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-10-21 10:00 ./usr/share/doc/python3-rdkit/ -rw-r--r-- root/root 225 2025-10-21 09:54 ./usr/share/doc/python3-rdkit/TODO.Debian -rw-r--r-- root/root 4810 2025-10-21 10:00 ./usr/share/doc/python3-rdkit/changelog.Debian.gz -rw-r--r-- root/root 132390 2025-08-29 13:10 ./usr/share/doc/python3-rdkit/changelog.gz -rw-r--r-- root/root 64692 2025-10-21 09:54 ./usr/share/doc/python3-rdkit/copyright +------------------------------------------------------------------------------+ | Post Build Fri, 16 Jan 2026 05:22:30 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Fri, 16 Jan 2026 05:22:30 +0000 | +------------------------------------------------------------------------------+ Purging /build/reproducible-path Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Fri, 16 Jan 2026 05:22:44 +0000 | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Type: any Build-Space: 6201316 Build-Time: 2270 Distribution: unstable Host Architecture: arm64 Install-Time: 7 Job: /srv/rebuilderd/tmp/rebuilderde3eNxT/inputs/rdkit_202503.6-3.dsc Machine Architecture: arm64 Package: rdkit Package-Time: 2320 Source-Version: 202503.6-3 Space: 6201316 Status: successful Version: 202503.6-3 -------------------------------------------------------------------------------- Finished at 2026-01-16T05:22:17Z Build needed 00:38:40, 6201316k disk space build artifacts stored in /srv/rebuilderd/tmp/rebuilderde3eNxT/out checking librdkit-dev_202503.6-3_arm64.deb: size... md5... sha256... sha1... all OK checking librdkit1t64-dbgsym_202503.6-3_arm64.deb: size differs for librdkit1t64-dbgsym_202503.6-3_arm64.deb