=============================================================================== 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/rebuilderdqw0fyl/inputs/rdkit_202503.6-2_arm64.buildinfo Source: rdkit Version: 202503.6-2 rebuilderd-worker node: codethink02-arm64 +------------------------------------------------------------------------------+ | Downloading sources Wed, 19 Nov 2025 20:01:49 +0000 | +------------------------------------------------------------------------------+ Get:1 https://deb.debian.org/debian trixie InRelease [140 kB] Get:2 https://deb.debian.org/debian-security trixie-security InRelease [43.4 kB] Get:3 https://deb.debian.org/debian trixie-updates InRelease [47.3 kB] Get:4 https://deb.debian.org/debian trixie-proposed-updates InRelease [57.5 kB] Get:5 https://deb.debian.org/debian trixie-backports InRelease [54.0 kB] Get:6 https://deb.debian.org/debian forky InRelease [148 kB] Get:7 https://deb.debian.org/debian sid InRelease [176 kB] Get:8 https://deb.debian.org/debian experimental InRelease [82.8 kB] Get:9 https://deb.debian.org/debian trixie/main Sources [10.5 MB] Get:10 https://deb.debian.org/debian trixie/non-free-firmware Sources [6548 B] Get:11 https://deb.debian.org/debian-security trixie-security/non-free-firmware Sources [696 B] Get:12 https://deb.debian.org/debian-security trixie-security/main Sources [93.1 kB] Get:13 https://deb.debian.org/debian trixie-updates/main Sources [2788 B] Get:14 https://deb.debian.org/debian trixie-backports/non-free-firmware Sources [1052 B] Get:15 https://deb.debian.org/debian trixie-backports/main Sources [86.7 kB] Get:16 https://deb.debian.org/debian forky/main Sources [10.7 MB] Get:17 https://deb.debian.org/debian forky/non-free-firmware Sources [7408 B] Get:18 https://deb.debian.org/debian sid/non-free-firmware Sources [9384 B] Get:19 https://deb.debian.org/debian sid/main Sources [11.2 MB] Get:20 https://deb.debian.org/debian experimental/main Sources [362 kB] Get:21 https://deb.debian.org/debian experimental/non-free-firmware Sources [3332 B] Fetched 33.7 MB in 4s (7546 kB/s) Reading package lists... 'https://deb.debian.org/debian/pool/main/r/rdkit/rdkit_202503.6-2.dsc' rdkit_202503.6-2.dsc 3110 SHA256:73894a224160da335503b5a2f08c1d78e6bdf29b8dfaaf3cdb42646b3fffb342 '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_202503.6-2.debian.tar.xz' rdkit_202503.6-2.debian.tar.xz 49556 SHA256:9b7a8a2a158c4f39864e3c67d99c3448efc7196aa549fb5ab3e56d762cf73a1c 88fa533178ab825e336ad22a6d0b8f1d392f038a99dec8787f25ad27d4a5544a rdkit_202503.6.orig.tar.xz 9b7a8a2a158c4f39864e3c67d99c3448efc7196aa549fb5ab3e56d762cf73a1c rdkit_202503.6-2.debian.tar.xz 73894a224160da335503b5a2f08c1d78e6bdf29b8dfaaf3cdb42646b3fffb342 rdkit_202503.6-2.dsc +------------------------------------------------------------------------------+ | Calling debrebuild Wed, 19 Nov 2025 20:01:57 +0000 | +------------------------------------------------------------------------------+ + nice /usr/bin/debrebuild --buildresult=/srv/rebuilderd/tmp/rebuilderdqw0fyl/out --builder=sbuild+unshare --cache=/srv/rebuilderd/cache -- /srv/rebuilderd/tmp/rebuilderdqw0fyl/inputs/rdkit_202503.6-2_arm64.buildinfo Rebuilding rdkit=202503.6-2 in /srv/rebuilderd/tmp/rebuilderdqw0fyl/inputs now. /srv/rebuilderd/tmp/rebuilderdqw0fyl/inputs/rdkit_202503.6-2_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 [176 kB] Get:2 http://snapshot.debian.org/archive/debian/20251009T082525Z sid InRelease [207 kB] Get:3 http://deb.debian.org/debian unstable/main arm64 Packages [10.1 MB] Get:4 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 Packages [10.1 MB] Fetched 20.6 MB in 4s (5070 kB/s) Reading package lists... W: http://snapshot.debian.org/archive/debian/20251009T082525Z/dists/sid/InRelease: Loading /etc/apt/trusted.gpg from deprecated option Dir::Etc::Trusted Get:1 http://deb.debian.org/debian unstable/main arm64 gzip arm64 1.13-1 [135 kB] Fetched 135 kB in 0s (5343 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqcdd4adj/gzip_1.13-1_arm64.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 (285 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbprii214/python3-defusedxml_0.7.1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-atomic1.83-dev arm64 1.83.0-5 [235 kB] Fetched 235 kB in 0s (8819 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0bvcni2o/libboost-atomic1.83-dev_1.83.0-5_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 (508 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwausbia3/catch2_3.7.1-0.6_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 (11.0 MB/s) dpkg-name: info: moved 'libjpeg62-turbo_1%3a2.1.5-4_arm64.deb' to '/srv/rebuilderd/tmp/tmprojkepwj/libjpeg62-turbo_2.1.5-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 g++-15 arm64 15.2.0-4 [23.4 kB] Fetched 23.4 kB in 0s (1650 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkztryug_/g++-15_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 mawk arm64 1.3.4.20250131-1 [134 kB] Fetched 134 kB in 0s (11.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb5b59341/mawk_1.3.4.20250131-1_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 (6879 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1cpaa0ox/libblas3_3.12.1-7_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 (10.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptenmdq6j/liblerc4_4.0.0+ds-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libbinutils arm64 2.45-7 [699 kB] Fetched 699 kB in 0s (5995 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfmuvjkpa/libbinutils_2.45-7_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 (11.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzwpt5_y9/libpam-runtime_1.7.0-5_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 (26.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm_jzllnd/libcatch2-dev_3.7.1-0.6_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libstdc++-14-dev arm64 14.3.0-8 [2567 kB] Fetched 2567 kB in 0s (67.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpohbpg7s1/libstdc++-14-dev_14.3.0-8_arm64.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 (1371 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw1tbtloi/libnuma1_2.0.19-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgcc-15-dev arm64 15.2.0-4 [2373 kB] Fetched 2373 kB in 0s (87.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjo2feiee/libgcc-15-dev_15.2.0-4_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 (1821 kB/s) dpkg-name: info: moved 'libio-pty-perl_1%3a1.20-1+b3_arm64.deb' to '/srv/rebuilderd/tmp/tmphs7e6wfv/libio-pty-perl_1.20-1+b3_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 (28.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9mcobcs3/libmpfr6_4.2.2-2_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 (4135 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx7r3xx_b/libmaeparser1_1.3.3-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 texlive-pictures all 2025.20250927-3 [23.6 MB] Fetched 23.6 MB in 0s (109 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjgv4rm0p/texlive-pictures_2025.20250927-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpaper-utils arm64 2.2.5-0.3+b2 [16.4 kB] Fetched 16.4 kB in 0s (425 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq7rr78sg/libpaper-utils_2.2.5-0.3+b2_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 (438 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpocgpnu34/libgdbm-compat4t64_1.26-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libncurses6 arm64 6.5+20250216-2 [96.1 kB] Fetched 96.1 kB in 0s (5656 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt2rl9vje/libncurses6_6.5+20250216-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 gcc-14-base arm64 14.3.0-8 [52.1 kB] Fetched 52.1 kB in 0s (4763 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpit567ejg/gcc-14-base_14.3.0-8_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 (961 kB/s) dpkg-name: info: moved 'libaudit-common_1%3a4.1.2-1_all.deb' to '/srv/rebuilderd/tmp/tmpqq1mqvyr/libaudit-common_4.1.2-1_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 (11.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpro7r1991/icu-devtools_76.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libncursesw6 arm64 6.5+20250216-2 [124 kB] Fetched 124 kB in 0s (1968 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7u5ivnw5/libncursesw6_6.5+20250216-2_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 (3284 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfcbiq9a1/libnghttp3-9_1.12.0-1_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 (26.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppdqqy33u/x11proto-dev_2024.1-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libasan8 arm64 15.2.0-4 [2600 kB] Fetched 2600 kB in 0s (67.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpphliifjr/libasan8_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-chrono1.83.0t64 arm64 1.83.0-5 [240 kB] Fetched 240 kB in 0s (4200 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp75a92sn7/libboost-chrono1.83.0t64_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-regex1.83-dev arm64 1.83.0-5 [335 kB] Fetched 335 kB in 0s (1952 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphofmer94/libboost-regex1.83-dev_1.83.0-5_arm64.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 (3518 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9cw5cth5/rpcsvc-proto_1.4.3-1+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libxml2-16 arm64 2.14.6+dfsg-0.1 [601 kB] Fetched 601 kB in 0s (36.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl7tdk96g/libxml2-16_2.14.6+dfsg-0.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.7-1 [10.2 kB] Fetched 10.2 kB in 0s (539 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe7_pkpq2/libpython3-stdlib_3.13.7-1_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 (36.6 MB/s) dpkg-name: info: moved 'libx11-dev_2%3a1.8.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp16clxuub/libx11-dev_1.8.12-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libuuid1 arm64 2.41.2-3 [37.6 kB] Fetched 37.6 kB in 0s (1949 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptjwcyfip/libuuid1_2.41.2-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-python1.83.0 arm64 1.83.0-5 [296 kB] Fetched 296 kB in 0s (13.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5mcbf_ci/libboost-python1.83.0_1.83.0-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 base-passwd arm64 3.6.7 [53.4 kB] Fetched 53.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9fv_np9p/base-passwd_3.6.7_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 (710 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeu028w33/dh-autoreconf_21_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Fetched 308 kB in 0s (26.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0j08ue2l/libkrb5-3_1.21.3-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtinfo6 arm64 6.5+20250216-2 [341 kB] Fetched 341 kB in 0s (17.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzk9ijiv2/libtinfo6_6.5+20250216-2_arm64.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 (490 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaullprtm/libcommons-logging-java_1.3.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcairo2-dev arm64 1.18.4-1+b1 [43.4 kB] Fetched 43.4 kB in 0s (2346 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptkhvwznq/libcairo2-dev_1.18.4-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 coreutils arm64 9.7-3 [2949 kB] Fetched 2949 kB in 0s (134 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbury48kh/coreutils_9.7-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-atomic1.83.0 arm64 1.83.0-5 [234 kB] Fetched 234 kB in 0s (21.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprygy4n8w/libboost-atomic1.83.0_1.83.0-5_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 (7269 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0oejgfns/fonts-dejavu-mono_2.37-8_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libraw23t64 arm64 0.21.4-2 [371 kB] Fetched 371 kB in 0s (17.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo5o57qed/libraw23t64_0.21.4-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-markupsafe arm64 3.0.2-2 [13.5 kB] Fetched 13.5 kB in 0s (628 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6c9wd7kz/python3-markupsafe_3.0.2-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 clang-19 arm64 1:19.1.7-7 [113 kB] Fetched 113 kB in 0s (6226 kB/s) dpkg-name: info: moved 'clang-19_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmp_h_sngm3/clang-19_19.1.7-7_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 (16.9 MB/s) dpkg-name: info: moved 'libmagic-mgc_1%3a5.46-5_arm64.deb' to '/srv/rebuilderd/tmp/tmpyngoq1ww/libmagic-mgc_5.46-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 linux-libc-dev all 6.16.11-1 [2546 kB] Fetched 2546 kB in 0s (64.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmusy2e7p/linux-libc-dev_6.16.11-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpangoft2-1.0-0 arm64 1.56.3-2 [56.5 kB] Fetched 56.5 kB in 0s (2190 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqvxp6v28/libpangoft2-1.0-0_1.56.3-2_arm64.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 (112 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyu6e9q19/libtext-wrapi18n-perl_0.06-10_all.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 (5199 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf5pe7ig1/rapidjson-dev_1.1.0+dfsg2-7.6_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 sysvinit-utils arm64 3.14-4 [34.0 kB] Fetched 34.0 kB in 0s (2206 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv2ycjhwa/sysvinit-utils_3.14-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libjs-sphinxdoc all 8.2.3-7 [27.6 kB] Fetched 27.6 kB in 0s (1341 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe11ign4e/libjs-sphinxdoc_8.2.3-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-program-options1.83.0 arm64 1.83.0-5 [331 kB] Fetched 331 kB in 0s (15.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphpuutz8f/libboost-program-options1.83.0_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libseccomp2 arm64 2.6.0-2 [51.0 kB] Fetched 51.0 kB in 0s (2719 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjrke8dry/libseccomp2_2.6.0-2_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 (1200 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphqzcdfd8/xml-core_0.19_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfreetype-dev arm64 2.13.3+dfsg-1 [600 kB] Fetched 600 kB in 0s (24.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjatk8tci/libfreetype-dev_2.13.3+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-iostreams1.83.0 arm64 1.83.0-5 [252 kB] Fetched 252 kB in 0s (14.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgckecmon/libboost-iostreams1.83.0_1.83.0-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 texlive-fonts-recommended all 2025.20250927-3 [4992 kB] Fetched 4992 kB in 0s (52.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3h94kswc/texlive-fonts-recommended_2025.20250927-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgcc-14-dev arm64 14.3.0-8 [2364 kB] Fetched 2364 kB in 0s (21.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe_eohipk/libgcc-14-dev_14.3.0-8_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 (8338 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqcgsrygb/liblua5.4-0_5.4.8-1_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 (550 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_txvmgad/libcommons-parent-java_56-1_all.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 (3058 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsym0_r61/libjson-perl_4.10000-1_all.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 (1839 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzlgcc5ta/libxcb-render0_1.17.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ucf all 3.0052 [43.3 kB] Fetched 43.3 kB in 0s (2393 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpov9_py8e/ucf_3.0052_all.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 (6535 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpze6gl_fk/libwebpmux3_1.5.0-0.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Fetched 308 kB in 0s (15.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxs9rr62x/libbrotli1_1.1.0-2+b7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-serialization1.83-dev arm64 1.83.0-5 [374 kB] Fetched 374 kB in 0s (19.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4yqjkc70/libboost-serialization1.83-dev_1.83.0-5_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 (22.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpouogkbb7/autoconf_2.72-3.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-packaging all 25.0-1 [56.6 kB] Fetched 56.6 kB in 0s (3235 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphdn1zjsq/python3-packaging_25.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgdk-pixbuf2.0-common all 2.44.3+dfsg-3 [313 kB] Fetched 313 kB in 0s (15.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptofjeq88/libgdk-pixbuf2.0-common_2.44.3+dfsg-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libjsoncpp26 arm64 1.9.6-4 [73.2 kB] Fetched 73.2 kB in 0s (3988 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd9686053/libjsoncpp26_1.9.6-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdatrie1 arm64 0.2.13-4 [37.4 kB] Fetched 37.4 kB in 0s (2167 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0xq5gt8g/libdatrie1_0.2.13-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libpython3.13 arm64 3.13.7-1 [1978 kB] Fetched 1978 kB in 0s (59.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnsoqwzos/libpython3.13_3.13.7-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libxml2-dev arm64 2.14.6+dfsg-0.1 [732 kB] Fetched 732 kB in 0s (5494 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7mxo1mvo/libxml2-dev_2.14.6+dfsg-0.1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsysprof-capture-4-dev arm64 49.0-1 [51.4 kB] Fetched 51.4 kB in 0s (2101 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2ejrxgs1/libsysprof-capture-4-dev_49.0-1_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 (1571 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9jcr_f0l/python3-idna_3.10-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libsemanage-common all 3.8.1-1 [7812 B] Fetched 7812 B in 0s (314 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2vo3ie33/libsemanage-common_3.8.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 zlib1g arm64 1:1.3.dfsg+really1.3.1-1+b1 [85.1 kB] Fetched 85.1 kB in 0s (3236 kB/s) dpkg-name: info: moved 'zlib1g_1%3a1.3.dfsg+really1.3.1-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmpeuhoi5jk/zlib1g_1.3.dfsg+really1.3.1-1+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libsepol-dev arm64 3.8.1-1 [356 kB] Fetched 356 kB in 0s (2939 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbgs8a49i/libsepol-dev_3.8.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxdmcp-dev arm64 1:1.1.5-1 [44.2 kB] Fetched 44.2 kB in 0s (2529 kB/s) dpkg-name: info: moved 'libxdmcp-dev_1%3a1.1.5-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpmky9g9yj/libxdmcp-dev_1.1.5-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Fetched 1130 kB in 0s (50.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptm_yn_bk/groff-base_1.23.0-9_arm64.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/tmpy3ee2x1k/build-essential_12.12_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 passwd arm64 1:4.18.0-1 [1263 kB] Fetched 1263 kB in 0s (55.7 MB/s) dpkg-name: info: moved 'passwd_1%3a4.18.0-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpk46b8b2s/passwd_4.18.0-1_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 (194 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4e_zpx4e/libboost-numpy-dev_1.83.0.2+b2_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 (73.6 MB/s) dpkg-name: info: moved 'bison_2%3a3.8.2+dfsg-1+b2_arm64.deb' to '/srv/rebuilderd/tmp/tmp65g9dz35/bison_3.8.2+dfsg-1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblzma5 arm64 5.8.1-2 [302 kB] Fetched 302 kB in 0s (16.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpunlxcp3k/liblzma5_5.8.1-2_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 (9217 kB/s) dpkg-name: info: moved 'libfontbox-java_1%3a1.8.16-5_all.deb' to '/srv/rebuilderd/tmp/tmp0c0r7q48/libfontbox-java_1.8.16-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-uc-micro all 1.0.3-1 [5744 B] Fetched 5744 B in 0s (124 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvo0dp81g/python3-uc-micro_1.0.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc6-dev arm64 2.41-12 [1621 kB] Fetched 1621 kB in 0s (45.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk8l6vifd/libc6-dev_2.41-12_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libglib2.0-0t64 arm64 2.84.4-3 [1428 kB] Fetched 1428 kB in 0s (50.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnaen72s_/libglib2.0-0t64_2.84.4-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Fetched 21.5 kB in 0s (233 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp27vhhucr/libffi8_3.5.2-2_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 (2885 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph66jfy4a/libgdbm6t64_1.26-1_arm64.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 (1979 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuo_ebtvt/libmd0_1.1.0-2+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 librsvg2-bin arm64 2.60.0+dfsg-1+b1 [1712 kB] Fetched 1712 kB in 0s (14.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzk7t6rak/librsvg2-bin_2.60.0+dfsg-1+b1_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 (255 kB/s) dpkg-name: info: moved 'libxau6_1%3a1.0.11-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp5h9wbgr6/libxau6_1.0.11-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libglib2.0-data all 2.84.4-3 [1286 kB] Fetched 1286 kB in 0s (59.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdr9cq4zn/libglib2.0-data_2.84.4-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20250419 [162 kB] Fetched 162 kB in 0s (14.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuxuyi6iv/ca-certificates_20250419_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Fetched 9716 B in 0s (669 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8rmqvc_0/libkeyutils1_1.6.3-6_arm64.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 (63.0 MB/s) dpkg-name: info: moved 'libpdfbox-java_1%3a1.8.16-5_all.deb' to '/srv/rebuilderd/tmp/tmpbw2avhhi/libpdfbox-java_1.8.16-5_all.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 (5844 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpedi2cfnx/python3-snowballstemmer_3.0.1-1_all.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 (2048 kB/s) dpkg-name: info: moved 'libsm6_2%3a1.2.6-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp9j5g97hw/libsm6_1.2.6-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 postgresql-common-dev all 284 [73.2 kB] Fetched 73.2 kB in 0s (3343 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpagd4mc9x/postgresql-common-dev_284_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgirepository-2.0-0 arm64 2.84.4-3 [134 kB] Fetched 134 kB in 0s (11.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn6vebjpn/libgirepository-2.0-0_2.84.4-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libipc-run-perl all 20231003.0-2 [101 kB] Fetched 101 kB in 0s (6164 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg124fkr2/libipc-run-perl_20231003.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 lmodern all 2.005-1 [9480 kB] Fetched 9480 kB in 0s (104 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw1uppzeo/lmodern_2.005-1_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 (197 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphl34prc0/libboost-dev_1.83.0.2+b2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 texlive-latex-recommended all 2025.20250927-3 [8509 kB] Fetched 8509 kB in 0s (116 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp997a9d3c/texlive-latex-recommended_2025.20250927-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libmount-dev arm64 2.41.2-3 [31.4 kB] Fetched 31.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3vit4jwb/libmount-dev_2.41.2-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Fetched 32.4 kB in 0s (1542 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoee_7kf_/libkrb5support0_1.21.3-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdpkg-perl all 1.22.21 [650 kB] Fetched 650 kB in 0s (28.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6_sx_yqb/libdpkg-perl_1.22.21_all.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 (555 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppbp9xwop/hicolor-icon-theme_0.18-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libarchive13t64 arm64 3.7.4-4+b1 [323 kB] Fetched 323 kB in 0s (27.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplpk_grsh/libarchive13t64_3.7.4-4+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libpq5 arm64 18.0-1 [240 kB] Fetched 240 kB in 0s (8330 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp16_qxr0m/libpq5_18.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libyaml-0-2 arm64 0.2.5-2 [49.2 kB] Fetched 49.2 kB in 0s (2335 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc7yxcvei/libyaml-0-2_0.2.5-2_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/tmpoi311_h_/netbase_6.5_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-pil arm64 11.3.0-1 [507 kB] Fetched 507 kB in 0s (9444 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3grlzvae/python3-pil_11.3.0-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 make arm64 4.4.1-2 [452 kB] Fetched 452 kB in 0s (21.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpivzkt6k2/make_4.4.1-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libglib2.0-dev arm64 2.84.4-3 [55.5 kB] Fetched 55.5 kB in 0s (2803 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj33io_cf/libglib2.0-dev_2.84.4-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 bash arm64 5.3-1 [1507 kB] Fetched 1507 kB in 0s (42.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl3kes5so/bash_5.3-1_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 (13.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf3i8jj2d/libwebp7_1.5.0-0.1_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 (28.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvwn8yxz4/openssl-provider-legacy_3.5.4-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libperl5.40 arm64 5.40.1-6 [4142 kB] Fetched 4142 kB in 0s (66.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptrdyc7q1/libperl5.40_5.40.1-6_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 (3486 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp722ksclx/autotools-dev_20240727.1_all.deb' Downloading dependency 1 of 508: gzip:arm64=1.13-1 Downloading dependency 2 of 508: python3-defusedxml:arm64=0.7.1-3 Downloading dependency 3 of 508: libboost-atomic1.83-dev:arm64=1.83.0-5 Downloading dependency 4 of 508: catch2:arm64=3.7.1-0.6 Downloading dependency 5 of 508: libjpeg62-turbo:arm64=1:2.1.5-4 Downloading dependency 6 of 508: g++-15:arm64=15.2.0-4 Downloading dependency 7 of 508: mawk:arm64=1.3.4.20250131-1 Downloading dependency 8 of 508: libblas3:arm64=3.12.1-7 Downloading dependency 9 of 508: liblerc4:arm64=4.0.0+ds-5 Downloading dependency 10 of 508: libbinutils:arm64=2.45-7 Downloading dependency 11 of 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Downloading dependency 88 of 508: libboost-numpy-dev:arm64=1.83.0.2+b2 Downloading dependency 89 of 508: bison:arm64=2:3.8.2+dfsg-1+b2 Downloading dependency 90 of 508: liblzma5:arm64=5.8.1-2 Downloading dependency 91 of 508: libfontbox-java:arm64=1:1.8.16-5 Downloading dependency 92 of 508: python3-uc-micro:arm64=1.0.3-1 Downloading dependency 93 of 508: libc6-dev:arm64=2.41-12 Downloading dependency 94 of 508: libglib2.0-0t64:arm64=2.84.4-3 Downloading dependency 95 of 508: libffi8:arm64=3.5.2-2 Downloading dependency 96 of 508: libgdbm6t64:arm64=1.26-1 Downloading dependency 97 of 508: libmd0:arm64=1.1.0-2+b1 Downloading dependency 98 of 508: librsvg2-bin:arm64=2.60.0+dfsg-1+b1 Downloading dependency 99 of 508: libxau6:arm64=1:1.0.11-1 Downloading dependency 100 of 508: libglib2.0-data:arm64=2.84.4-3 Downloading dependency 101 of 508: ca-certificates:arm64=20250419 Downloading dependency 102 of 508: libkeyutils1:arm64=1.6.3-6 Downloading dependency 103 of 508: 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libyaml-0-2:arm64=0.2.5-2 Downloading dependency 119 of 508: netbase:arm64=6.5 Downloading dependency 120 of 508: python3-pil:arm64=11.3.0-1 Downloading dependency 121 of 508: make:arm64=4.4.1-2 Downloading dependency 122 of 508: libglib2.0-dev:arm64=2.84.4-3 Downloading dependency 123 of 508: bash:arm64=5.3-1 Downloading dependency 124 of 508: libwebp7:arm64=1.5.0-0.1 Downloading dependency 125 of 508: openssl-provider-legacy:arm64=3.5.4-1 Downloading dependency 126 of 508: libperl5.40:arm64=5.40.1-6 Downloading dependency 127 of 508: autotools-dev:arm64=20240727.1 Downloading dependency 128 of 508: texlive-binaries:arm64=2025.20250727.75242+ds-4Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-binaries arm64 2025.20250727.75242+ds-4 [6818 kB] Fetched 6818 kB in 0s (194 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn1ip1_m8/texlive-binaries_2025.20250727.75242+ds-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libinchi1.07 arm64 1.07.3+dfsg-1 [499 kB] Fetched 499 kB in 0s (23.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8cnxa_zi/libinchi1.07_1.07.3+dfsg-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libpython3.13-stdlib arm64 3.13.7-1 [1895 kB] Fetched 1895 kB in 0s (47.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp29u2tcyk/libpython3.13-stdlib_3.13.7-1_arm64.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 (11.0 MB/s) dpkg-name: info: moved 'libxaw7_2%3a1.0.16-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpshzo708u/libxaw7_1.0.16-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 doxygen arm64 1.9.8+ds-2.1 [4519 kB] Fetched 4519 kB in 0s (136 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa7mhmonv/doxygen_1.9.8+ds-2.1_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 (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_wqrg9yp/pkgconf_1.8.1-4_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 (1416 kB/s) dpkg-name: info: moved 'xorg-sgml-doctools_1%3a1.11-1.1_all.deb' to '/srv/rebuilderd/tmp/tmp_4l1cl9b/xorg-sgml-doctools_1.11-1.1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgc1 arm64 1:8.2.8-1 [241 kB] Fetched 241 kB in 0s (11.7 MB/s) dpkg-name: info: moved 'libgc1_1%3a8.2.8-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpq_rp491u/libgc1_8.2.8-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Fetched 422 kB in 0s (6906 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpycx6sbau/libfreetype6_2.13.3+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblqr-1-0 arm64 0.4.2-2.1+b2 [27.0 kB] Fetched 27.0 kB in 0s (2647 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkaxmod2o/liblqr-1-0_0.4.2-2.1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Fetched 248 kB in 0s (3943 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3ftxayv0/po-debconf_1.0.21+nmu1_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 (11.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjete7ocl/libpam-modules_1.7.0-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3.13-minimal arm64 3.13.7-1 [2001 kB] Fetched 2001 kB in 0s (71.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqv5qaz3_/python3.13-minimal_3.13.7-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 fontconfig arm64 2.15.0-2.4 [463 kB] Fetched 463 kB in 0s (39.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1mj04ndy/fontconfig_2.15.0-2.4_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 (151 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8rrsc2k1/libz3-4_4.13.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.28 [941 kB] Fetched 941 kB in 0s (69.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyjtej8kf/debhelper_13.28_all.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 (4341 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvx_f2tty/python3-commonmark_0.9.1-8_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Fetched 241 kB in 0s (19.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp61pxx0_6/gettext-base_0.23.1-2+b1_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 (1557 kB/s) dpkg-name: info: moved 'libattr1_1%3a2.5.2-3_arm64.deb' to '/srv/rebuilderd/tmp/tmpn27wwf2x/libattr1_2.5.2-3_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 (11.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt6i0q_rc/libexpat1-dev_2.7.3-1_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 (60.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpztgmhhmd/libpcre2-dev_10.46-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-babel all 2.17.0-1 [117 kB] Fetched 117 kB in 0s (10.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp77zp7__7/python3-babel_2.17.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2.4 [387 kB] Fetched 387 kB in 0s (29.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe3bivtw4/libfontconfig1_2.15.0-2.4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 postgresql-client-18 arm64 18.0-1 [2061 kB] Fetched 2061 kB in 0s (57.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9o7pjw8e/postgresql-client-18_18.0-1_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 (56.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphgmfgecj/libsqlite3-dev_3.46.1-8_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 (11.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplbh3qu6l/libcoordgen3_3.0.2-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ncurses-bin arm64 6.5+20250216-2 [432 kB] Fetched 432 kB in 0s (21.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpql7vrmzw/ncurses-bin_6.5+20250216-2_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 (6666 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjlrqntll/libsharpyuv0_1.5.0-0.1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libsmartcols1 arm64 2.41.2-3 [139 kB] Fetched 139 kB in 0s (7375 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc9k3ipyl/libsmartcols1_2.41.2-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgfortran5 arm64 15.2.0-4 [371 kB] Fetched 371 kB in 0s (18.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphaihg3sm/libgfortran5_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libteckit0 arm64 2.5.12+ds1-1+b1 [303 kB] Fetched 303 kB in 0s (16.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6ezdrotb/libteckit0_2.5.12+ds1-1+b1_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 (3049 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp36s947q2/libsasl2-2_2.1.28+dfsg1-10_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 cmake-data all 4.1.1+really3.31.6-2 [2268 kB] Fetched 2268 kB in 0s (65.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpph_i9sn8/cmake-data_4.1.1+really3.31.6-2_all.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 (3242 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplefy3ml2/t1utils_1.41-4+b1_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 (7015 kB/s) dpkg-name: info: moved 'libxext-dev_2%3a1.3.4-1+b3_arm64.deb' to '/srv/rebuilderd/tmp/tmpjrejhawb/libxext-dev_1.3.4-1+b3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Fetched 40.2 kB in 0s (2439 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdjerwwfv/libpipeline1_1.5.8-1_arm64.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/tmph3cixb74/libicu76_76.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcap2 arm64 1:2.75-10+b1 [28.2 kB] Fetched 28.2 kB in 0s (2778 kB/s) dpkg-name: info: moved 'libcap2_1%3a2.75-10+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmp5fk51nbk/libcap2_2.75-10+b1_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 (143 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnrhi68pa/pandoc_3.1.11.1+ds-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcairo-script-interpreter2 arm64 1.18.4-1+b1 [57.4 kB] Fetched 57.4 kB in 0s (3376 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0dotga3o/libcairo-script-interpreter2_1.18.4-1+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libubsan1 arm64 15.2.0-4 [1064 kB] Fetched 1064 kB in 0s (41.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp75f7k1am/libubsan1_15.2.0-4_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 (1333 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkf3wktbe/python3-recommonmark_0.7.1+ds-8_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 (63.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuup360dq/liblapack3_3.12.1-7_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 postgresql-client-common all 284 [47.8 kB] Fetched 47.8 kB in 0s (2857 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiglpvrdp/postgresql-client-common_284_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcairo-gobject2 arm64 1.18.4-1+b1 [130 kB] Fetched 130 kB in 0s (7292 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyjmea9n5/libcairo-gobject2_1.18.4-1+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libstdc++-15-dev arm64 15.2.0-4 [2323 kB] Fetched 2323 kB in 0s (63.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa2rc4q2b/libstdc++-15-dev_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Fetched 9652 B in 0s (874 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5xtvlt97/python3-certifi_2025.1.31+ds-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 (11.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpso181rf9/libldap2_2.6.10+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-numpy1.83.0 arm64 1.83.0-5 [241 kB] Fetched 241 kB in 0s (14.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppwejf5bt/libboost-numpy1.83.0_1.83.0-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 binutils-common arm64 2.45-7 [2558 kB] Fetched 2558 kB in 0s (47.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbicmhkcd/binutils-common_2.45-7_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 (2295 kB/s) dpkg-name: info: moved 'libxrender-dev_1%3a0.9.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp5dzjbdx5/libxrender-dev_0.9.12-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgio-2.0-dev arm64 2.84.4-3 [1708 kB] Fetched 1708 kB in 0s (56.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1upfbqhy/libgio-2.0-dev_2.84.4-3_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 (312 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0wxwktb0/libboost-python-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dpkg-dev all 1.22.21 [1338 kB] Fetched 1338 kB in 0s (92.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5s9c9zea/dpkg-dev_1.22.21_all.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 (1126 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsg8tp5oh/python3-linkify-it_2.0.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 base-files arm64 14 [72.9 kB] Fetched 72.9 kB in 0s (4171 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbbu9pxnb/base-files_14_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 (20.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgc1_j_av/libfftw3-double3_3.3.10-2+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 llvm-19-tools arm64 1:19.1.7-7 [487 kB] Fetched 487 kB in 0s (40.1 MB/s) dpkg-name: info: moved 'llvm-19-tools_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmpiymjutk6/llvm-19-tools_19.1.7-7_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 (1611 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxvb94esu/python3-alabaster_0.7.16-0.1_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 (17.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv77i7z93/libnettle8t64_3.10.2-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libpython3.13-minimal arm64 3.13.7-1 [857 kB] Fetched 857 kB in 0s (13.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnbjyw7cl/libpython3.13-minimal_3.13.7-1_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 (13.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa3hcczlx/libssh2-1t64_1.11.1-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libobjc-15-dev arm64 15.2.0-4 [166 kB] Fetched 166 kB in 0s (16.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf7d2mo8n/libobjc-15-dev_15.2.0-4_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 (5082 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpygrne5h7/libxcb1-dev_1.17.0-2+b1_arm64.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 (580 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0g4mw0c2/dh-strip-nondeterminism_1.15.0-1_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 (609 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpshubcr84/sgml-base_1.31+nmu1_all.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 (1349 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1dh7wd_m/libxxhash0_0.8.3-2_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 (5396 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkq1r2t2a/libuchardet0_0.0.8-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libsemanage2 arm64 3.8.1-1 [87.8 kB] Fetched 87.8 kB in 0s (5557 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbsqt16y2/libsemanage2_3.8.1-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libclang-cpp19 arm64 1:19.1.7-7 [12.0 MB] Fetched 12.0 MB in 0s (139 MB/s) dpkg-name: info: moved 'libclang-cpp19_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmpfrrlq8oj/libclang-cpp19_19.1.7-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-system1.83-dev arm64 1.83.0-5 [232 kB] Fetched 232 kB in 0s (13.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpofkfmstb/libboost-system1.83-dev_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.7-1 [27.2 kB] Fetched 27.2 kB in 0s (1539 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcvz69dl1/python3-minimal_3.13.7-1_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 (12.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp78ivjw56/libuv1t64_1.51.0-2_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 (1636 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxy_84s4m/sensible-utils_0.0.26_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libedit2 arm64 3.1-20250104-1 [89.3 kB] Fetched 89.3 kB in 0s (2478 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv8f07595/libedit2_3.1-20250104-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 perl-modules-5.40 all 5.40.1-6 [3019 kB] Fetched 3019 kB in 0s (73.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn1wppzbb/perl-modules-5.40_5.40.1-6_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 cpp-15 arm64 15.2.0-4 [1276 B] Fetched 1276 B in 0s (75.0 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz3ux1rl0/cpp-15_15.2.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 liblsan0 arm64 15.2.0-4 [1194 kB] Fetched 1194 kB in 0s (44.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbr3b48o1/liblsan0_15.2.0-4_arm64.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 (5248 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp44eaazg7/dash_0.5.12-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Fetched 836 kB in 0s (30.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8i0w88ez/python3-pygments_2.18.0+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 grep arm64 3.12-1 [440 kB] Fetched 440 kB in 0s (21.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq9o8lhj_/grep_3.12-1_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 (3866 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn28xy0p3/python3-requests_2.32.5+dfsg-1_all.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 (26.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvyd4jqwh/libeigen3-dev_3.4.0-5_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Fetched 127 kB in 0s (7146 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp67dvpe76/libgssapi-krb5-2_1.21.3-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libctf0 arm64 2.45-7 [89.8 kB] Fetched 89.8 kB in 0s (2496 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr2qq22c4/libctf0_2.45-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libheif-plugin-dav1d arm64 1.20.2-2+b1 [18.1 kB] Fetched 18.1 kB in 0s (435 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpehpmxd94/libheif-plugin-dav1d_1.20.2-2+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libpython3.13-dev arm64 3.13.7-1 [4924 kB] Fetched 4924 kB in 0s (81.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5hjec5e3/libpython3.13-dev_3.13.7-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 cpp-15-aarch64-linux-gnu arm64 15.2.0-4 [74.3 MB] Fetched 74.3 MB in 1s (51.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnsr9ja9f/cpp-15-aarch64-linux-gnu_15.2.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libcc1-0 arm64 15.2.0-4 [41.4 kB] Fetched 41.4 kB in 0s (3502 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfer4fwz_/libcc1-0_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpaper2 arm64 2.2.5-0.3+b2 [16.6 kB] Fetched 16.6 kB in 0s (865 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvrkxpvdv/libpaper2_2.2.5-0.3+b2_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 (4121 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn7h9qa39/xdg-utils_1.2.1-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 llvm-19-linker-tools arm64 1:19.1.7-7 [1099 kB] Fetched 1099 kB in 0s (33.4 MB/s) dpkg-name: info: moved 'llvm-19-linker-tools_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmplo5uxu5s/llvm-19-linker-tools_19.1.7-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpng-dev arm64 1.6.50-1 [361 kB] Fetched 361 kB in 0s (14.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpizxs7yb4/libpng-dev_1.6.50-1_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 (2289 kB/s) dpkg-name: info: moved 'libsm-dev_2%3a1.2.6-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp3p20l7ja/libsm-dev_1.2.6-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 cmake arm64 4.1.1+really3.31.6-2 [10.1 MB] Fetched 10.1 MB in 0s (197 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2b9j8l67/cmake_4.1.1+really3.31.6-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libsynctex2 arm64 2025.20250727.75242+ds-4 [54.5 kB] Fetched 54.5 kB in 0s (2922 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeyyl0iob/libsynctex2_2025.20250727.75242+ds-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libpq-dev arm64 18.0-1 [159 kB] Fetched 159 kB in 0s (7522 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuig57e0_/libpq-dev_18.0-1_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 (1556 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgpkqft_j/python3-myst-parser_4.0.1-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libdav1d7 arm64 1.5.1-1 [252 kB] Fetched 252 kB in 0s (9648 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbq3x4xdb/libdav1d7_1.5.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-iostreams1.83-dev arm64 1.83.0-5 [261 kB] Fetched 261 kB in 0s (8148 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkytxfuhy/libboost-iostreams1.83-dev_1.83.0-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 sphinx-common all 8.2.3-7 [619 kB] Fetched 619 kB in 0s (25.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxj79fojr/sphinx-common_8.2.3-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Fetched 92.4 kB in 0s (5605 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphx16kcwh/libdebhelper-perl_13.28_all.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 (2763 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbc98j_dy/libpfm4_4.13.0+git106-g3e4031b-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 (1263 kB/s) dpkg-name: info: moved 'libfontenc1_1%3a1.1.8-1+b2_arm64.deb' to '/srv/rebuilderd/tmp/tmp_gq28nzk/libfontenc1_1.1.8-1+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libjansson4 arm64 2.14-2+b3 [39.2 kB] Fetched 39.2 kB in 0s (2189 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7_5okxh8/libjansson4_2.14-2+b3_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/tmpcha3lwa4/libboost-system-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025b-5 [260 kB] Fetched 260 kB in 0s (12.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpamgwrs22/tzdata_2025b-5_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 (2268 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg6y6c2_e/init-system-helpers_1.69_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 g++-15-aarch64-linux-gnu arm64 15.2.0-4 [79.3 MB] Fetched 79.3 MB in 1s (65.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0o9mwhqo/g++-15-aarch64-linux-gnu_15.2.0-4_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 (72.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp73ph3qv6/libssl-dev_3.5.4-1_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 (3577 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgkpu58ga/python3-dateutil_2.9.0-4_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 (5803 kB/s) dpkg-name: info: moved 'libmagic1t64_1%3a5.46-5_arm64.deb' to '/srv/rebuilderd/tmp/tmpdju6xh46/libmagic1t64_5.46-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Fetched 27.8 kB in 0s (1462 kB/s) dpkg-name: info: moved 'libxdmcp6_1%3a1.1.5-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpvukk0dq8/libxdmcp6_1.1.5-1_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 (33.1 MB/s) dpkg-name: info: moved 'procps_2%3a4.0.4-9_arm64.deb' to '/srv/rebuilderd/tmp/tmpm0ykpzra/procps_4.0.4-9_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 (1307 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgx7e3vyz/liblzo2-2_2.10-3+b1_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 (1146 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx2tq678n/libsasl2-modules-db_2.1.28+dfsg1-10_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libaudit1 arm64 1:4.1.2-1 [59.5 kB] Fetched 59.5 kB in 0s (3468 kB/s) dpkg-name: info: moved 'libaudit1_1%3a4.1.2-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpyepp85iq/libaudit1_4.1.2-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-date-time1.83.0 arm64 1.83.0-5 [231 kB] Fetched 231 kB in 0s (17.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_sujonk4/libboost-date-time1.83.0_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.16-2 [100 kB] Fetched 100 kB in 0s (5545 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6jhts5k5/dwz_0.16-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1.2 [138 kB] Fetched 138 kB in 0s (12.3 MB/s) dpkg-name: info: moved 'python3-numpy-dev_1%3a2.2.4+ds-1.2_arm64.deb' to '/srv/rebuilderd/tmp/tmpf1o5jbzs/python3-numpy-dev_2.2.4+ds-1.2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libhwasan0 arm64 15.2.0-4 [1480 kB] Fetched 1480 kB in 0s (51.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwpsfhqt4/libhwasan0_15.2.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 autopoint all 0.23.1-2 [770 kB] Fetched 770 kB in 0s (33.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpni66g5zd/autopoint_0.23.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.5.4-1 [1457 kB] Fetched 1457 kB in 0s (48.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp06jvq5fs/openssl_3.5.4-1_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 (18.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpimvvj865/flex_2.6.4-8.2+b4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libinchi-dev arm64 1.07.3+dfsg-1 [19.6 kB] Fetched 19.6 kB in 0s (819 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvvq2pqhj/libinchi-dev_1.07.3+dfsg-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-roman all 5.1-1 [11.0 kB] Fetched 11.0 kB in 0s (547 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp66vhmy65/python3-roman_5.1-1_all.deb' Downloading dependency 129 of 508: libinchi1.07:arm64=1.07.3+dfsg-1 Downloading dependency 130 of 508: libpython3.13-stdlib:arm64=3.13.7-1 Downloading dependency 131 of 508: libxaw7:arm64=2:1.0.16-1 Downloading dependency 132 of 508: doxygen:arm64=1.9.8+ds-2.1 Downloading dependency 133 of 508: pkgconf:arm64=1.8.1-4 Downloading dependency 134 of 508: xorg-sgml-doctools:arm64=1:1.11-1.1 Downloading dependency 135 of 508: libgc1:arm64=1:8.2.8-1 Downloading dependency 136 of 508: libfreetype6:arm64=2.13.3+dfsg-1 Downloading dependency 137 of 508: liblqr-1-0:arm64=0.4.2-2.1+b2 Downloading dependency 138 of 508: po-debconf:arm64=1.0.21+nmu1 Downloading dependency 139 of 508: libpam-modules:arm64=1.7.0-5 Downloading dependency 140 of 508: python3.13-minimal:arm64=3.13.7-1 Downloading dependency 141 of 508: 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dependency 157 of 508: libgfortran5:arm64=15.2.0-4 Downloading dependency 158 of 508: libteckit0:arm64=2.5.12+ds1-1+b1 Downloading dependency 159 of 508: libsasl2-2:arm64=2.1.28+dfsg1-10 Downloading dependency 160 of 508: cmake-data:arm64=4.1.1+really3.31.6-2 Downloading dependency 161 of 508: t1utils:arm64=1.41-4+b1 Downloading dependency 162 of 508: libxext-dev:arm64=2:1.3.4-1+b3 Downloading dependency 163 of 508: libpipeline1:arm64=1.5.8-1 Downloading dependency 164 of 508: libicu76:arm64=76.1-4 Downloading dependency 165 of 508: libcap2:arm64=1:2.75-10+b1 Downloading dependency 166 of 508: pandoc:arm64=3.1.11.1+ds-4 Downloading dependency 167 of 508: libcairo-script-interpreter2:arm64=1.18.4-1+b1 Downloading dependency 168 of 508: libubsan1:arm64=15.2.0-4 Downloading dependency 169 of 508: python3-recommonmark:arm64=0.7.1+ds-8 Downloading dependency 170 of 508: liblapack3:arm64=3.12.1-7 Downloading dependency 171 of 508: postgresql-client-common:arm64=284 Downloading dependency 172 of 508: libcairo-gobject2:arm64=1.18.4-1+b1 Downloading dependency 173 of 508: libstdc++-15-dev:arm64=15.2.0-4 Downloading dependency 174 of 508: python3-certifi:arm64=2025.1.31+ds-1 Downloading dependency 175 of 508: libldap2:arm64=2.6.10+dfsg-1 Downloading dependency 176 of 508: libboost-numpy1.83.0:arm64=1.83.0-5 Downloading dependency 177 of 508: binutils-common:arm64=2.45-7 Downloading dependency 178 of 508: libxrender-dev:arm64=1:0.9.12-1 Downloading dependency 179 of 508: libgio-2.0-dev:arm64=2.84.4-3 Downloading dependency 180 of 508: libboost-python-dev:arm64=1.83.0.2+b2 Downloading dependency 181 of 508: dpkg-dev:arm64=1.22.21 Downloading dependency 182 of 508: python3-linkify-it:arm64=2.0.3-1 Downloading dependency 183 of 508: base-files:arm64=14 Downloading dependency 184 of 508: libfftw3-double3:arm64=3.3.10-2+b1 Downloading dependency 185 of 508: llvm-19-tools:arm64=1:19.1.7-7 Downloading dependency 186 of 508: python3-alabaster:arm64=0.7.16-0.1 Downloading dependency 187 of 508: libnettle8t64:arm64=3.10.2-1 Downloading dependency 188 of 508: libpython3.13-minimal:arm64=3.13.7-1 Downloading dependency 189 of 508: libssh2-1t64:arm64=1.11.1-1 Downloading dependency 190 of 508: libobjc-15-dev:arm64=15.2.0-4 Downloading dependency 191 of 508: libxcb1-dev:arm64=1.17.0-2+b1 Downloading dependency 192 of 508: dh-strip-nondeterminism:arm64=1.15.0-1 Downloading dependency 193 of 508: sgml-base:arm64=1.31+nmu1 Downloading dependency 194 of 508: libxxhash0:arm64=0.8.3-2 Downloading dependency 195 of 508: libuchardet0:arm64=0.0.8-2 Downloading dependency 196 of 508: libsemanage2:arm64=3.8.1-1 Downloading dependency 197 of 508: libclang-cpp19:arm64=1:19.1.7-7 Downloading dependency 198 of 508: libboost-system1.83-dev:arm64=1.83.0-5 Downloading dependency 199 of 508: python3-minimal:arm64=3.13.7-1 Downloading dependency 200 of 508: libuv1t64:arm64=1.51.0-2 Downloading dependency 201 of 508: sensible-utils:arm64=0.0.26 Downloading dependency 202 of 508: libedit2:arm64=3.1-20250104-1 Downloading dependency 203 of 508: perl-modules-5.40:arm64=5.40.1-6 Downloading dependency 204 of 508: cpp-15:arm64=15.2.0-4 Downloading dependency 205 of 508: liblsan0:arm64=15.2.0-4 Downloading dependency 206 of 508: dash:arm64=0.5.12-12 Downloading dependency 207 of 508: python3-pygments:arm64=2.18.0+dfsg-2 Downloading dependency 208 of 508: grep:arm64=3.12-1 Downloading dependency 209 of 508: python3-requests:arm64=2.32.5+dfsg-1 Downloading dependency 210 of 508: libeigen3-dev:arm64=3.4.0-5 Downloading dependency 211 of 508: libgssapi-krb5-2:arm64=1.21.3-5 Downloading dependency 212 of 508: libctf0:arm64=2.45-7 Downloading dependency 213 of 508: libheif-plugin-dav1d:arm64=1.20.2-2+b1 Downloading dependency 214 of 508: libpython3.13-dev:arm64=3.13.7-1 Downloading dependency 215 of 508: cpp-15-aarch64-linux-gnu:arm64=15.2.0-4 Downloading dependency 216 of 508: libcc1-0:arm64=15.2.0-4 Downloading dependency 217 of 508: libpaper2:arm64=2.2.5-0.3+b2 Downloading dependency 218 of 508: xdg-utils:arm64=1.2.1-2 Downloading dependency 219 of 508: llvm-19-linker-tools:arm64=1:19.1.7-7 Downloading dependency 220 of 508: libpng-dev:arm64=1.6.50-1 Downloading dependency 221 of 508: libsm-dev:arm64=2:1.2.6-1 Downloading dependency 222 of 508: cmake:arm64=4.1.1+really3.31.6-2 Downloading dependency 223 of 508: libsynctex2:arm64=2025.20250727.75242+ds-4 Downloading dependency 224 of 508: libpq-dev:arm64=18.0-1 Downloading dependency 225 of 508: python3-myst-parser:arm64=4.0.1-1 Downloading dependency 226 of 508: libdav1d7:arm64=1.5.1-1 Downloading dependency 227 of 508: libboost-iostreams1.83-dev:arm64=1.83.0-5 Downloading dependency 228 of 508: sphinx-common:arm64=8.2.3-7 Downloading dependency 229 of 508: libdebhelper-perl:arm64=13.28 Downloading dependency 230 of 508: libpfm4:arm64=4.13.0+git106-g3e4031b-1 Downloading dependency 231 of 508: libfontenc1:arm64=1:1.1.8-1+b2 Downloading dependency 232 of 508: libjansson4:arm64=2.14-2+b3 Downloading dependency 233 of 508: libboost-system-dev:arm64=1.83.0.2+b2 Downloading dependency 234 of 508: tzdata:arm64=2025b-5 Downloading dependency 235 of 508: init-system-helpers:arm64=1.69 Downloading dependency 236 of 508: g++-15-aarch64-linux-gnu:arm64=15.2.0-4 Downloading dependency 237 of 508: libssl-dev:arm64=3.5.4-1 Downloading dependency 238 of 508: python3-dateutil:arm64=2.9.0-4 Downloading dependency 239 of 508: libmagic1t64:arm64=1:5.46-5 Downloading dependency 240 of 508: libxdmcp6:arm64=1:1.1.5-1 Downloading dependency 241 of 508: procps:arm64=2:4.0.4-9 Downloading dependency 242 of 508: liblzo2-2:arm64=2.10-3+b1 Downloading dependency 243 of 508: libsasl2-modules-db:arm64=2.1.28+dfsg1-10 Downloading dependency 244 of 508: libaudit1:arm64=1:4.1.2-1 Downloading dependency 245 of 508: libboost-date-time1.83.0:arm64=1.83.0-5 Downloading dependency 246 of 508: dwz:arm64=0.16-2 Downloading dependency 247 of 508: python3-numpy-dev:arm64=1:2.2.4+ds-1.2 Downloading dependency 248 of 508: libhwasan0:arm64=15.2.0-4 Downloading dependency 249 of 508: autopoint:arm64=0.23.1-2 Downloading dependency 250 of 508: openssl:arm64=3.5.4-1 Downloading dependency 251 of 508: flex:arm64=2.6.4-8.2+b4 Downloading dependency 252 of 508: libinchi-dev:arm64=1.07.3+dfsg-1 Downloading dependency 253 of 508: python3-roman:arm64=5.1-1 Downloading dependency 254 of 508: libxext6:arm64=2:1.3.4-1+b3 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 (2394 kB/s) dpkg-name: info: moved 'libxext6_2%3a1.3.4-1+b3_arm64.deb' to '/srv/rebuilderd/tmp/tmpxi7qz564/libxext6_1.3.4-1+b3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 imagemagick-7-common all 8:7.1.2.3+dfsg1-1 [69.0 kB] Fetched 69.0 kB in 0s (1813 kB/s) dpkg-name: info: moved 'imagemagick-7-common_8%3a7.1.2.3+dfsg1-1_all.deb' to '/srv/rebuilderd/tmp/tmp1kb8vcxc/imagemagick-7-common_7.1.2.3+dfsg1-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libcrypt1 arm64 1:4.4.38-1 [91.8 kB] Fetched 91.8 kB in 0s (4385 kB/s) dpkg-name: info: moved 'libcrypt1_1%3a4.4.38-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpwo4i_rp9/libcrypt1_4.4.38-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-thread1.83-dev arm64 1.83.0-5 [277 kB] Fetched 277 kB in 0s (13.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp406rm1zp/libboost-thread1.83-dev_1.83.0-5_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 (2920 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0j458eyg/libjbig0_2.1-6.1+b2_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 (13.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprv8dyw6u/libpcre2-8-0_10.46-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 llvm-19-runtime arm64 1:19.1.7-7 [503 kB] Fetched 503 kB in 0s (20.6 MB/s) dpkg-name: info: moved 'llvm-19-runtime_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmp0onspj0b/llvm-19-runtime_19.1.7-7_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 (1482 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9sj3gd1h/python3-mdit-py-plugins_0.5.0-1_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 (24.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6b89f0ab/findutils_4.10.0-3_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 (53.1 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxmpvycj4/libboost-iostreams-dev_1.83.0.2+b2_arm64.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 (2828 kB/s) dpkg-name: info: moved 'libxpm4_1%3a3.5.17-1+b3_arm64.deb' to '/srv/rebuilderd/tmp/tmpwlu3_umk/libxpm4_3.5.17-1+b3_arm64.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 (85.1 kB/s) dpkg-name: info: moved 'gcc-aarch64-linux-gnu_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmp8dgk6m1_/gcc-aarch64-linux-gnu_15.2.0-4_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 (2813 kB/s) dpkg-name: info: moved 'libproc2-0_2%3a4.0.4-9_arm64.deb' to '/srv/rebuilderd/tmp/tmpstbt39ig/libproc2-0_4.0.4-9_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libobjc4 arm64 15.2.0-4 [39.7 kB] Fetched 39.7 kB in 0s (1730 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp97gh3y4y/libobjc4_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-date-time1.83-dev arm64 1.83.0-5 [239 kB] Fetched 239 kB in 0s (6833 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx35273f3/libboost-date-time1.83-dev_1.83.0-5_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 (5233 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_2mqvcc2/libxcb-shm0-dev_1.17.0-2+b1_arm64.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 (311 kB/s) dpkg-name: info: moved 'cpp-aarch64-linux-gnu_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpvj4gv7j_/cpp-aarch64-linux-gnu_15.2.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 imagemagick arm64 8:7.1.2.3+dfsg1-1 [21.6 kB] Fetched 21.6 kB in 0s (781 kB/s) dpkg-name: info: moved 'imagemagick_8%3a7.1.2.3+dfsg1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpb19lf7e5/imagemagick_7.1.2.3+dfsg1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost1.83-dev arm64 1.83.0-5 [10.6 MB] Fetched 10.6 MB in 0s (112 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu6w2jiuu/libboost1.83-dev_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pytz all 2025.2-4 [31.8 kB] Fetched 31.8 kB in 0s (1712 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_oi0muad/python3-pytz_2025.2-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-roman-numerals all 3.1.0-2 [8740 B] Fetched 8740 B in 0s (428 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmproon357u/python3-roman-numerals_3.1.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-system1.83.0 arm64 1.83.0-5 [231 kB] Fetched 231 kB in 0s (11.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnyfu9jen/libboost-system1.83.0_1.83.0-5_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 (17.0 MB/s) dpkg-name: info: moved 'libx11-data_2%3a1.8.12-1_all.deb' to '/srv/rebuilderd/tmp/tmps2vf1hjk/libx11-data_1.8.12-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Fetched 81.2 kB in 0s (4412 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpglwwh7bl/libk5crypto3_1.21.3-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libdebconfclient0 arm64 0.280 [10.8 kB] Fetched 10.8 kB in 0s (608 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqcrocpcv/libdebconfclient0_0.280_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 (10.6 MB/s) dpkg-name: info: moved 'libxt6t64_1%3a1.2.1-1.3_arm64.deb' to '/srv/rebuilderd/tmp/tmpp96gr5ak/libxt6t64_1.2.1-1.3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 binutils-aarch64-linux-gnu arm64 2.45-7 [875 kB] Fetched 875 kB in 0s (35.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqrrhj2iq/binutils-aarch64-linux-gnu_2.45-7_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libltdl7 arm64 2.5.4-5 [415 kB] Fetched 415 kB in 0s (18.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp23fr7jvc/libltdl7_2.5.4-5_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 (13.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmezmzp00/libsqlite3-0_3.46.1-8_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpython3-dev arm64 3.13.7-1 [10.5 kB] Fetched 10.5 kB in 0s (89.7 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv7vvb1wu/libpython3-dev_3.13.7-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 gcc-15-base arm64 15.2.0-4 [52.8 kB] Fetched 52.8 kB in 0s (2750 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz56j6dto/gcc-15-base_15.2.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-pandas all 2.3.2+dfsg-2 [2931 kB] Fetched 2931 kB in 0s (100 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcyp9pd7a/python3-pandas_2.3.2+dfsg-2_all.deb' Get: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 (1692 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5iyz1bnr/libpam-modules-bin_1.7.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Fetched 453 kB in 0s (5624 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9pxv33_n/libunistring5_1.3-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 texlive-latex-extra all 2025.20250927-3 [27.7 MB] Fetched 27.7 MB in 0s (101 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4_4icexm/texlive-latex-extra_2025.20250927-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libatomic1 arm64 15.2.0-4 [9940 B] Fetched 9940 B in 0s (595 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbjznggec/libatomic1_15.2.0-4_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 (25.2 MB/s) dpkg-name: info: moved 'libgmp10_2%3a6.3.0+dfsg-5_arm64.deb' to '/srv/rebuilderd/tmp/tmp7nk46kzq/libgmp10_6.3.0+dfsg-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgomp1 arm64 15.2.0-4 [127 kB] Fetched 127 kB in 0s (6668 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_qiksgik/libgomp1_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2.4 [318 kB] Fetched 318 kB in 0s (15.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvkseqmva/fontconfig-config_2.15.0-2.4_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 (243 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjq9eaiw9/libfile-stripnondeterminism-perl_1.15.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libstdc++6 arm64 15.2.0-4 [647 kB] Fetched 647 kB in 0s (19.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx7l3h7e9/libstdc++6_15.2.0-4_arm64.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 (2615 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_0539yh5/libtasn1-6_4.20.0-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libblkid-dev arm64 2.41.2-3 [211 kB] Fetched 211 kB in 0s (8802 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjwemlnzo/libblkid-dev_2.41.2-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 login.defs all 1:4.18.0-1 [211 kB] Fetched 211 kB in 0s (2443 kB/s) dpkg-name: info: moved 'login.defs_1%3a4.18.0-1_all.deb' to '/srv/rebuilderd/tmp/tmphcpcoos0/login.defs_4.18.0-1_all.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 (2019 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxqxoa39y/libwebpdemux2_1.5.0-0.1_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 (6383 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm82re3ss/m4_1.4.20-2_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 (1967 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp2sjsheo/libpkgconf3_1.8.1-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 postgresql-server-dev-all all 284 [14.7 kB] Fetched 14.7 kB in 0s (848 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf_3kg3ab/postgresql-server-dev-all_284_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Fetched 189 kB in 0s (4379 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpan4mulmg/libelf1t64_0.193-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 texlive-base all 2025.20250927-3 [23.1 MB] Fetched 23.1 MB in 0s (77.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprbnx6woq/texlive-base_2025.20250927-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libsystemd0 arm64 258-1 [426 kB] Fetched 426 kB in 0s (18.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2qhosn6c/libsystemd0_258-1_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 (3917 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvcdcklf3/libnghttp2-14_1.64.0-1.1+b1_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 (203 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeyqbsmah/libapache-pom-java_33-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libtsan2 arm64 15.2.0-4 [2400 kB] Fetched 2400 kB in 0s (61.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplikeza17/libtsan2_15.2.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3.13 arm64 3.13.7-1 [761 kB] Fetched 761 kB in 0s (23.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps5xy3oh_/python3.13_3.13.7-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libmagickwand-7.q16-10 arm64 8:7.1.2.3+dfsg1-1 [270 kB] Fetched 270 kB in 0s (13.4 MB/s) dpkg-name: info: moved 'libmagickwand-7.q16-10_8%3a7.1.2.3+dfsg1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpfvzr5fuf/libmagickwand-7.q16-10_7.1.2.3+dfsg1-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libitm1 arm64 15.2.0-4 [24.2 kB] Fetched 24.2 kB in 0s (1368 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvhr9pruv/libitm1_15.2.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libclang-common-19-dev arm64 1:19.1.7-7 [740 kB] Fetched 740 kB in 0s (31.7 MB/s) dpkg-name: info: moved 'libclang-common-19-dev_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmp29myw298/libclang-common-19-dev_19.1.7-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.50-1 [275 kB] Fetched 275 kB in 0s (12.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1rlair6i/libpng16-16t64_1.6.50-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Fetched 92.4 kB in 0s (4145 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6ohqyrji/python3-typing-extensions_4.15.0-1_all.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 (1239 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp12ckh472/libpotrace0_1.16-2+b2_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 (5027 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm3622tvv/libidn2-0_2.3.8-4_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 (915 kB/s) dpkg-name: info: moved 'libxau-dev_1%3a1.0.11-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpahwvg8o_/libxau-dev_1.0.11-1_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 (32.9 MB/s) dpkg-name: info: moved 'libx11-6_2%3a1.8.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp2t4yy7rm/libx11-6_1.8.12-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libisl23 arm64 0.27-1 [601 kB] Fetched 601 kB in 0s (25.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx8cxtc7_/libisl23_0.27-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libssl3t64 arm64 3.5.4-1 [2725 kB] Fetched 2725 kB in 0s (32.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe4tpuuxe/libssl3t64_3.5.4-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-greenlet arm64 3.1.0-1+b2 [162 kB] Fetched 162 kB in 0s (8850 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbkkrjpda/python3-greenlet_3.1.0-1+b2_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 (4953 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsbrxyok2/xtrans-dev_1.6.0-1_all.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 (8993 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptdop7mv3/libexpat1_2.7.3-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 debconf all 1.5.91 [121 kB] Fetched 121 kB in 0s (6391 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmnh582vy/debconf_1.5.91_all.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 (6853 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo7f32dnd/libpixman-1-0_0.46.4-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgcc-s1 arm64 15.2.0-4 [53.5 kB] Fetched 53.5 kB in 0s (2921 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5sxc95bm/libgcc-s1_15.2.0-4_arm64.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 (228 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpouvu0mpk/python3-imagesize_1.4.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-charset-normalizer arm64 3.4.3-1 [123 kB] Fetched 123 kB in 0s (5363 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsgmcw1i9/python3-charset-normalizer_3.4.3-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 automake all 1:1.17-4 [862 kB] Fetched 862 kB in 0s (33.3 MB/s) dpkg-name: info: moved 'automake_1%3a1.17-4_all.deb' to '/srv/rebuilderd/tmp/tmpqqnib_kc/automake_1.17-4_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 docutils-common all 0.21.2+dfsg-2 [128 kB] Fetched 128 kB in 0s (6029 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx81nvgjy/docutils-common_0.21.2+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 12.1.0-1 [486 kB] Fetched 486 kB in 0s (16.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpexawp7e2/libharfbuzz0b_12.1.0-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Fetched 6396 B in 0s (326 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuxx5nioo/python3-iniconfig_1.1.1-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 media-types all 13.0.0 [29.3 kB] Fetched 29.3 kB in 0s (1158 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmht60n_4/media-types_13.0.0_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 girepository-tools arm64 2.84.4-3 [139 kB] Fetched 139 kB in 0s (5782 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz96s47cc/girepository-tools_2.84.4-3_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 (1453 kB/s) dpkg-name: info: moved 'libxrender1_1%3a0.9.12-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpmdzqcvqy/libxrender1_0.9.12-1_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 (3037 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1hsbw2gh/readline-common_8.3-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 postgresql-common all 284 [112 kB] Fetched 112 kB in 0s (5181 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpll9unk6_/postgresql-common_284_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 tex-gyre all 20180621-6 [6209 kB] Fetched 6209 kB in 0s (42.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5bn7_gax/tex-gyre_20180621-6_all.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 (576 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz0vhagl2/libpixman-1-dev_0.46.4-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libde265-0 arm64 1.0.16-1 [153 kB] Fetched 153 kB in 0s (6909 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7jbxm3st/libde265-0_1.0.16-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libselinux1 arm64 3.8.1-1 [79.4 kB] Fetched 79.4 kB in 0s (4447 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg3itwuj3/libselinux1_3.8.1-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libudev1 arm64 258-1 [146 kB] Fetched 146 kB in 0s (6113 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi97wjyqj/libudev1_258-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Fetched 169 kB in 0s (3401 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2ja5mu_7/libreadline8t64_8.3-3_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 (24.6 MB/s) dpkg-name: info: moved 'xfonts-encodings_1%3a1.0.4-2.2_all.deb' to '/srv/rebuilderd/tmp/tmp0cey4dys/xfonts-encodings_1.0.4-2.2_all.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 (2499 kB/s) dpkg-name: info: moved 'file_1%3a5.46-5_arm64.deb' to '/srv/rebuilderd/tmp/tmpmlfidzl5/file_5.46-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-regex1.83.0 arm64 1.83.0-5 [314 kB] Fetched 314 kB in 0s (13.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy3s9i10_/libboost-regex1.83.0_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-3 [26.5 kB] Fetched 26.5 kB in 0s (1027 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd7z7b1jf/libfribidi0_1.0.16-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcap-ng0 arm64 0.8.5-4+b1 [17.0 kB] Fetched 17.0 kB in 0s (1132 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1s1rmbr5/libcap-ng0_0.8.5-4+b1_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 (11.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8altuee3/libtiff6_4.7.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxmu6 arm64 2:1.1.3-3+b4 [55.7 kB] Fetched 55.7 kB in 0s (967 kB/s) dpkg-name: info: moved 'libxmu6_2%3a1.1.3-3+b4_arm64.deb' to '/srv/rebuilderd/tmp/tmp1198ddwf/libxmu6_1.1.3-3+b4_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 (54.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdexqy7da/fonts-lmodern_2.005-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libblkid1 arm64 2.41.2-3 [166 kB] Fetched 166 kB in 0s (8907 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5wzvft3u/libblkid1_2.41.2-3_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 (40.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwp7qt01h/libxapian30_1.4.29-3_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 (2028 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpym4oyi86/libdeflate0_1.23-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-python1.83-dev arm64 1.83.0-5 [322 kB] Fetched 322 kB in 0s (14.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0r8d9khw/libboost-python1.83-dev_1.83.0-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Fetched 1612 kB in 0s (35.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1nnp6xm8/gettext_0.23.1-2+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgnutls30t64 arm64 3.8.10-2 [1395 kB] Fetched 1395 kB in 0s (3981 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi88sg6p1/libgnutls30t64_3.8.10-2_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 (1223 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyx129bqm/intltool-debian_0.35.0+20060710.6_all.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 (763 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9e1jj4ed/libbz2-dev_1.0.8-6_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libcurl4t64 arm64 8.16.0-4 [368 kB] Fetched 368 kB in 0s (6810 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsujadkrj/libcurl4t64_8.16.0-4_arm64.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 (4497 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxo_9hxzn/libxcb-shm0_1.17.0-2+b1_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 (6133 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjjzstlf7/preview-latex-style_13.2-1.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libopenjp2-7 arm64 2.5.3-2.1 [189 kB] Fetched 189 kB in 0s (9636 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt_bs42hq/libopenjp2-7_2.5.3-2.1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgdk-pixbuf-2.0-0 arm64 2.44.3+dfsg-3 [133 kB] Fetched 133 kB in 0s (7364 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8141v2hw/libgdk-pixbuf-2.0-0_2.44.3+dfsg-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 tex-common all 6.19 [29.4 kB] Fetched 29.4 kB in 0s (1729 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc6h8c8wl/tex-common_6.19_all.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 (10.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprldcn9_o/libfmt10_10.1.1+ds1-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-numpy arm64 1:2.2.4+ds-1.2 [3620 kB] Fetched 3620 kB in 0s (90.3 MB/s) dpkg-name: info: moved 'python3-numpy_1%3a2.2.4+ds-1.2_arm64.deb' to '/srv/rebuilderd/tmp/tmpm7x_t2jw/python3-numpy_2.2.4+ds-1.2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-serialization1.83.0 arm64 1.83.0-5 [325 kB] Fetched 325 kB in 0s (6121 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps68tm55k/libboost-serialization1.83.0_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dpkg arm64 1.22.21 [1521 kB] Fetched 1521 kB in 0s (10.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzaxqlwlb/dpkg_1.22.21_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 (1467 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq6wz2cuq/libngtcp2-crypto-ossl0_1.16.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libtexlua53-5 arm64 2025.20250727.75242+ds-4 [90.8 kB] Fetched 90.8 kB in 0s (8074 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvwceo01v/libtexlua53-5_2025.20250727.75242+ds-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libctf-nobfd0 arm64 2.45-7 [158 kB] Fetched 158 kB in 0s (5573 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppy60_c2b/libctf-nobfd0_2.45-7_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 (58.0 kB/s) dpkg-name: info: moved 'g++-aarch64-linux-gnu_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpt021cm3u/g++-aarch64-linux-gnu_15.2.0-4_arm64.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 (77.1 kB/s) dpkg-name: info: moved 'g++_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmp9ju1grqx/g++_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 hostname arm64 3.25 [10.8 kB] Fetched 10.8 kB in 0s (622 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpite7m4o8/hostname_3.25_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 (2238 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpndxr15oy/pkgconf-bin_1.8.1-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 uuid-dev arm64 2.41.2-3 [49.6 kB] Fetched 49.6 kB in 0s (3912 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7mxvijh2/uuid-dev_2.41.2-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 gcc-15-aarch64-linux-gnu arm64 15.2.0-4 [81.8 MB] Fetched 81.8 MB in 1s (119 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw20x59qt/gcc-15-aarch64-linux-gnu_15.2.0-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libkpathsea6 arm64 2025.20250727.75242+ds-4 [149 kB] Fetched 149 kB in 0s (5556 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe5u9nkg_/libkpathsea6_2025.20250727.75242+ds-4_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 (53.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpax7q5obf/man-db_2.13.1-1_arm64.deb' Downloading dependency 255 of 508: imagemagick-7-common:arm64=8:7.1.2.3+dfsg1-1 Downloading dependency 256 of 508: libcrypt1:arm64=1:4.4.38-1 Downloading dependency 257 of 508: libboost-thread1.83-dev:arm64=1.83.0-5 Downloading dependency 258 of 508: libjbig0:arm64=2.1-6.1+b2 Downloading dependency 259 of 508: libpcre2-8-0:arm64=10.46-1 Downloading dependency 260 of 508: llvm-19-runtime:arm64=1:19.1.7-7 Downloading dependency 261 of 508: python3-mdit-py-plugins:arm64=0.5.0-1 Downloading dependency 262 of 508: findutils:arm64=4.10.0-3 Downloading dependency 263 of 508: libboost-iostreams-dev:arm64=1.83.0.2+b2 Downloading dependency 264 of 508: libxpm4:arm64=1:3.5.17-1+b3 Downloading dependency 265 of 508: gcc-aarch64-linux-gnu:arm64=4:15.2.0-4 Downloading dependency 266 of 508: libproc2-0:arm64=2:4.0.4-9 Downloading dependency 267 of 508: libobjc4:arm64=15.2.0-4 Downloading dependency 268 of 508: libboost-date-time1.83-dev:arm64=1.83.0-5 Downloading dependency 269 of 508: libxcb-shm0-dev:arm64=1.17.0-2+b1 Downloading dependency 270 of 508: cpp-aarch64-linux-gnu:arm64=4:15.2.0-4 Downloading dependency 271 of 508: imagemagick:arm64=8:7.1.2.3+dfsg1-1 Downloading dependency 272 of 508: libboost1.83-dev:arm64=1.83.0-5 Downloading dependency 273 of 508: python3-pytz:arm64=2025.2-4 Downloading dependency 274 of 508: python3-roman-numerals:arm64=3.1.0-2 Downloading dependency 275 of 508: libboost-system1.83.0:arm64=1.83.0-5 Downloading dependency 276 of 508: libx11-data:arm64=2:1.8.12-1 Downloading dependency 277 of 508: libk5crypto3:arm64=1.21.3-5 Downloading dependency 278 of 508: libdebconfclient0:arm64=0.280 Downloading dependency 279 of 508: libxt6t64:arm64=1:1.2.1-1.3 Downloading dependency 280 of 508: binutils-aarch64-linux-gnu:arm64=2.45-7 Downloading dependency 281 of 508: libltdl7:arm64=2.5.4-5 Downloading dependency 282 of 508: libsqlite3-0:arm64=3.46.1-8 Downloading dependency 283 of 508: libpython3-dev:arm64=3.13.7-1 Downloading dependency 284 of 508: gcc-15-base:arm64=15.2.0-4 Downloading dependency 285 of 508: python3-pandas:arm64=2.3.2+dfsg-2 Downloading dependency 286 of 508: libpam-modules-bin:arm64=1.7.0-5 Downloading dependency 287 of 508: libunistring5:arm64=1.3-2 Downloading dependency 288 of 508: texlive-latex-extra:arm64=2025.20250927-3 Downloading dependency 289 of 508: libatomic1:arm64=15.2.0-4 Downloading dependency 290 of 508: libgmp10:arm64=2:6.3.0+dfsg-5 Downloading dependency 291 of 508: libgomp1:arm64=15.2.0-4 Downloading dependency 292 of 508: fontconfig-config:arm64=2.15.0-2.4 Downloading dependency 293 of 508: libfile-stripnondeterminism-perl:arm64=1.15.0-1 Downloading dependency 294 of 508: libstdc++6:arm64=15.2.0-4 Downloading dependency 295 of 508: libtasn1-6:arm64=4.20.0-2 Downloading dependency 296 of 508: libblkid-dev:arm64=2.41.2-3 Downloading dependency 297 of 508: login.defs:arm64=1:4.18.0-1 Downloading dependency 298 of 508: libwebpdemux2:arm64=1.5.0-0.1 Downloading dependency 299 of 508: m4:arm64=1.4.20-2 Downloading dependency 300 of 508: libpkgconf3:arm64=1.8.1-4 Downloading dependency 301 of 508: postgresql-server-dev-all:arm64=284 Downloading dependency 302 of 508: libelf1t64:arm64=0.193-3 Downloading dependency 303 of 508: texlive-base:arm64=2025.20250927-3 Downloading dependency 304 of 508: libsystemd0:arm64=258-1 Downloading dependency 305 of 508: libnghttp2-14:arm64=1.64.0-1.1+b1 Downloading dependency 306 of 508: libapache-pom-java:arm64=33-2 Downloading dependency 307 of 508: libtsan2:arm64=15.2.0-4 Downloading dependency 308 of 508: python3.13:arm64=3.13.7-1 Downloading dependency 309 of 508: libmagickwand-7.q16-10:arm64=8:7.1.2.3+dfsg1-1 Downloading dependency 310 of 508: 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Downloading dependency 342 of 508: libreadline8t64:arm64=8.3-3 Downloading dependency 343 of 508: xfonts-encodings:arm64=1:1.0.4-2.2 Downloading dependency 344 of 508: file:arm64=1:5.46-5 Downloading dependency 345 of 508: libboost-regex1.83.0:arm64=1.83.0-5 Downloading dependency 346 of 508: libfribidi0:arm64=1.0.16-3 Downloading dependency 347 of 508: libcap-ng0:arm64=0.8.5-4+b1 Downloading dependency 348 of 508: libtiff6:arm64=4.7.1-1 Downloading dependency 349 of 508: libxmu6:arm64=2:1.1.3-3+b4 Downloading dependency 350 of 508: fonts-lmodern:arm64=2.005-1 Downloading dependency 351 of 508: libblkid1:arm64=2.41.2-3 Downloading dependency 352 of 508: libxapian30:arm64=1.4.29-3 Downloading dependency 353 of 508: libdeflate0:arm64=1.23-2 Downloading dependency 354 of 508: libboost-python1.83-dev:arm64=1.83.0-5 Downloading dependency 355 of 508: gettext:arm64=0.23.1-2+b1 Downloading dependency 356 of 508: libgnutls30t64:arm64=3.8.10-2 Downloading dependency 357 of 508: intltool-debian:arm64=0.35.0+20060710.6 Downloading dependency 358 of 508: libbz2-dev:arm64=1.0.8-6 Downloading dependency 359 of 508: libcurl4t64:arm64=8.16.0-4 Downloading dependency 360 of 508: libxcb-shm0:arm64=1.17.0-2+b1 Downloading dependency 361 of 508: preview-latex-style:arm64=13.2-1.1 Downloading dependency 362 of 508: libopenjp2-7:arm64=2.5.3-2.1 Downloading dependency 363 of 508: libgdk-pixbuf-2.0-0:arm64=2.44.3+dfsg-3 Downloading dependency 364 of 508: tex-common:arm64=6.19 Downloading dependency 365 of 508: libfmt10:arm64=10.1.1+ds1-4 Downloading dependency 366 of 508: python3-numpy:arm64=1:2.2.4+ds-1.2 Downloading dependency 367 of 508: libboost-serialization1.83.0:arm64=1.83.0-5 Downloading dependency 368 of 508: dpkg:arm64=1.22.21 Downloading dependency 369 of 508: libngtcp2-crypto-ossl0:arm64=1.16.0-1 Downloading dependency 370 of 508: libtexlua53-5:arm64=2025.20250727.75242+ds-4 Downloading dependency 371 of 508: libctf-nobfd0:arm64=2.45-7 Downloading dependency 372 of 508: g++-aarch64-linux-gnu:arm64=4:15.2.0-4 Downloading dependency 373 of 508: g++:arm64=4:15.2.0-4 Downloading dependency 374 of 508: hostname:arm64=3.25 Downloading dependency 375 of 508: pkgconf-bin:arm64=1.8.1-4 Downloading dependency 376 of 508: uuid-dev:arm64=2.41.2-3 Downloading dependency 377 of 508: gcc-15-aarch64-linux-gnu:arm64=15.2.0-4 Downloading dependency 378 of 508: libkpathsea6:arm64=2025.20250727.75242+ds-4 Downloading dependency 379 of 508: man-db:arm64=2.13.1-1 Downloading dependency 380 of 508: python3-pandas-lib:arm64=2.3.2+dfsg-2Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-pandas-lib arm64 2.3.2+dfsg-2 [3651 kB] Fetched 3651 kB in 0s (68.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptdwdogc6/python3-pandas-lib_2.3.2+dfsg-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 (1663 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4o1rtprj/libbz2-1.0_1.0.8-6_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 binutils arm64 2.45-7 [265 kB] Fetched 265 kB in 0s (4064 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj6hewye4/binutils_2.45-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 ncurses-base all 6.5+20250216-2 [273 kB] Fetched 273 kB in 0s (12.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsyuh3wkg/ncurses-base_6.5+20250216-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libgav1-1 arm64 0.19.0-3+b1 [491 kB] Fetched 491 kB in 0s (1798 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbdoue0mn/libgav1-1_0.19.0-3+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3.13-dev arm64 3.13.7-1 [504 kB] Fetched 504 kB in 0s (19.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8cyzm326/python3.13-dev_3.13.7-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libncurses-dev arm64 6.5+20250216-2 [340 kB] Fetched 340 kB in 0s (16.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp274bmnby/libncurses-dev_6.5+20250216-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 texlive-latex-base all 2025.20250927-3 [1320 kB] Fetched 1320 kB in 0s (40.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi859_wii/texlive-latex-base_2025.20250927-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 imagemagick-7.q16 arm64 8:7.1.2.3+dfsg1-1 [728 kB] Fetched 728 kB in 0s (13.4 MB/s) dpkg-name: info: moved 'imagemagick-7.q16_8%3a7.1.2.3+dfsg1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpkionegm3/imagemagick-7.q16_7.1.2.3+dfsg1-1_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 (2231 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp85zls54s/debianutils_5.23.2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgio-2.0-dev-bin arm64 2.84.4-3 [165 kB] Fetched 165 kB in 0s (7700 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8g5sd3zq/libgio-2.0-dev-bin_2.84.4-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpangocairo-1.0-0 arm64 1.56.3-2 [35.3 kB] Fetched 35.3 kB in 0s (2098 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiyskfqhh/libpangocairo-1.0-0_1.56.3-2_arm64.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 (673 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsq8d8zfk/libmpfi0_1.5.4+ds-4_arm64.deb' 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 (61.5 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpop1_633o/libtext-charwidth-perl_0.04-11+b4_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 (4234 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl5xvbdi1/python3-markdown-it_3.0.0-3_all.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 (30.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcp91ii8_/fonts-dejavu-core_2.37-8_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-numpy1.83-dev arm64 1.83.0-5 [246 kB] Fetched 246 kB in 0s (12.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpobinwto4/libboost-numpy1.83-dev_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.7-1 [28.3 kB] Fetched 28.3 kB in 0s (1562 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppyrvapwl/python3_3.13.7-1_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 (197 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7fjg29mu/libboost-program-options-dev_1.83.0.2+b2_arm64.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 (3123 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeklzfqo_/libpsl5t64_0.21.2-1.1+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libmount1 arm64 2.41.2-3 [199 kB] Fetched 199 kB in 0s (10.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbu9nx8py/libmount1_2.41.2-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 llvm-19 arm64 1:19.1.7-7 [14.6 MB] Fetched 14.6 MB in 0s (76.7 MB/s) dpkg-name: info: moved 'llvm-19_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmpv8xtnwm9/llvm-19_19.1.7-7_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 (195 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_eclzic6/libboost-thread-dev_1.83.0.2+b2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libyuv0 arm64 0.0.1919.20250919-1 [138 kB] Fetched 138 kB in 0s (6665 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe_mmonym/libyuv0_0.0.1919.20250919-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-yaml arm64 6.0.2-2 [122 kB] Fetched 122 kB in 0s (5309 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi_fri3jw/python3-yaml_6.0.2-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-program-options1.83-dev arm64 1.83.0-5 [369 kB] Fetched 369 kB in 0s (17.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph1jjmy1g/libboost-program-options1.83-dev_1.83.0-5_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 (88.8 kB/s) dpkg-name: info: moved 'cpp_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmp0dg1jyt3/cpp_15.2.0-4_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 (102 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwqiiimq9/native-architecture_0.2.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 librhash1 arm64 1.4.6-1 [131 kB] Fetched 131 kB in 0s (6793 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiq5n6vxl/librhash1_1.4.6-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libgprofng0 arm64 2.45-7 [702 kB] Fetched 702 kB in 0s (27.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppe77b07o/libgprofng0_2.45-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 adduser all 3.153 [191 kB] Fetched 191 kB in 0s (9907 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt5yg4jih/adduser_3.153_all.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 (7689 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2t13a5xa/libpcre2-32-0_10.46-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libptexenc1 arm64 2025.20250727.75242+ds-4 [49.5 kB] Fetched 49.5 kB in 0s (2000 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpazne6dgu/libptexenc1_2025.20250727.75242+ds-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 librsvg2-2 arm64 2.60.0+dfsg-1+b1 [1585 kB] Fetched 1585 kB in 0s (33.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpukn33_vd/librsvg2-2_2.60.0+dfsg-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.4-1+b1 [483 kB] Fetched 483 kB in 0s (20.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7vqvpdku/libcairo2_1.18.4-1+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 texlive-luatex all 2025.20250927-3 [36.0 MB] Fetched 36.0 MB in 1s (50.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnwfda2as/texlive-luatex_2025.20250927-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-chrono1.83-dev arm64 1.83.0-5 [245 kB] Fetched 245 kB in 0s (2001 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0g19jf6p/libboost-chrono1.83-dev_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 patch arm64 2.8-2 [128 kB] Fetched 128 kB in 0s (2102 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp96_7z5yf/patch_2.8-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libpango-1.0-0 arm64 1.56.3-2 [222 kB] Fetched 222 kB in 0s (9767 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpifctiurf/libpango-1.0-0_1.56.3-2_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 (709 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpacn9lbg5/libcoordgen-dev_3.0.2-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 llvm-19-dev arm64 1:19.1.7-7 [39.8 MB] Fetched 39.8 MB in 1s (55.3 MB/s) dpkg-name: info: moved 'llvm-19-dev_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmp32bswdfa/llvm-19-dev_19.1.7-7_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 (2868 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9mzocvlg/libzzip-0-13t64_0.13.78+dfsg.1-0.2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libsepol2 arm64 3.8.1-1 [266 kB] Fetched 266 kB in 0s (11.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo1f2vhv8/libsepol2_3.8.1-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-sqlalchemy all 2.0.43+ds1-1 [1224 kB] Fetched 1224 kB in 0s (21.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8l9crwvd/python3-sqlalchemy_2.0.43+ds1-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Fetched 403 kB in 0s (12.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg2zb7g_j/python3-docutils_0.21.2+dfsg-2_all.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 (2026 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbsf1w3it/libpam0g_1.7.0-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libaom3 arm64 3.13.1-1 [1631 kB] Fetched 1631 kB in 0s (22.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuhjpkay2/libaom3_3.13.1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc6 arm64 2.41-12 [2489 kB] Fetched 2489 kB in 0s (55.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv_7c0fyv/libc6_2.41-12_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libavif16 arm64 1.3.0-1+b1 [127 kB] Fetched 127 kB in 0s (4076 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwzg1rmy0/libavif16_1.3.0-1+b1_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 (2614 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw2ss9pk0/librtmp1_2.4+20151223.gitfa8646d.1-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libheif-plugin-libde265 arm64 1.20.2-2+b1 [16.9 kB] Fetched 16.9 kB in 0s (891 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpodrtd770/libheif-plugin-libde265_1.20.2-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libxi6 arm64 2:1.8.2-1 [77.8 kB] Fetched 77.8 kB in 0s (3672 kB/s) dpkg-name: info: moved 'libxi6_2%3a1.8.2-1_arm64.deb' to '/srv/rebuilderd/tmp/tmpwt8f8ou8/libxi6_1.8.2-1_arm64.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 (5249 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7lm57drl/python3-chardet_5.2.0+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libffi-dev arm64 3.5.2-2 [58.3 kB] Fetched 58.3 kB in 0s (3132 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqakxfqx3/libffi-dev_3.5.2-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Fetched 917 kB in 0s (34.3 MB/s) dpkg-name: info: moved 'zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_arm64.deb' to '/srv/rebuilderd/tmp/tmp0ywefckk/zlib1g-dev_1.3.dfsg+really1.3.1-1+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20250414 [116 kB] Fetched 116 kB in 0s (5365 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqge4oxej/dh-python_6.20250414_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libsframe2 arm64 2.45-7 [80.0 kB] Fetched 80.0 kB in 0s (4663 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp24q9_exy/libsframe2_2.45-7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libabsl20240722 arm64 20240722.0-4 [452 kB] Fetched 452 kB in 0s (20.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfm30ufk7/libabsl20240722_20240722.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 python3-sphinx all 8.2.3-7 [477 kB] Fetched 477 kB in 0s (23.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbiydjjri/python3-sphinx_8.2.3-7_all.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 (786 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu0f_abml/libmaeparser-dev_1.3.3-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 diffutils arm64 1:3.10-4 [378 kB] Fetched 378 kB in 0s (18.3 MB/s) dpkg-name: info: moved 'diffutils_1%3a3.10-4_arm64.deb' to '/srv/rebuilderd/tmp/tmpg7fbf_q5/diffutils_3.10-4_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 (15.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp70vr2izy/libhogweed6t64_3.10.2-1_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 (50.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv_8vxok2/libsvtav1enc2_2.3.0+dfsg-1_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 (1182 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpozizn0m4/libpcre2-posix3_10.46-1_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 (1184 kB/s) dpkg-name: info: moved 'libice6_2%3a1.1.1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp8h3a2a94/libice6_1.1.1-1_arm64.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 (2722 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7mj7hzz3/libxcb1_1.17.0-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libthai0 arm64 0.1.29-2+b1 [48.4 kB] Fetched 48.4 kB in 0s (2577 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpid6kxylw/libthai0_0.1.29-2+b1_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 (1812 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp54htylfn/libacl1_2.3.2-2+b1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-10 [626 kB] Fetched 626 kB in 0s (24.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkunhs8de/libdb5.3t64_5.3.28+dfsg2-10_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 (24.1 MB/s) dpkg-name: info: moved 'latexmk_1%3a4.87~ds-1_all.deb' to '/srv/rebuilderd/tmp/tmpuy0_3dzo/latexmk_4.87~ds-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.8.1-2 [344 kB] Fetched 344 kB in 0s (16.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwwlua6lq/liblzma-dev_5.8.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pytest all 8.4.2-1 [266 kB] Fetched 266 kB in 0s (13.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9rgh4zpa/python3-pytest_8.4.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python-babel-localedata all 2.17.0-1 [6050 kB] Fetched 6050 kB in 0s (91.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu8bsvxod/python-babel-localedata_2.17.0-1_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 (5670 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjy3g8b4q/libarchive-zip-perl_1.68-1_all.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 (117 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq8rpe_ih/libicu-dev_76.1-4_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libboost-thread1.83.0 arm64 1.83.0-5 [266 kB] Fetched 266 kB in 0s (13.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplj2o66df/libboost-thread1.83.0_1.83.0-5_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libheif1 arm64 1.20.2-2+b1 [504 kB] Fetched 504 kB in 0s (23.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxf05we26/libheif1_1.20.2-2+b1_arm64.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 (6128 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxnyrzopr/libxcb-render0-dev_1.17.0-2+b1_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 (31.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpepd1unu5/pandoc-data_3.1.11.1-3_all.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 (33.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdzbtswsv/tar_1.35+dfsg-3.1_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 (524 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkf2u10ev/python3-mdurl_0.1.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-pluggy all 1.6.0-1 [27.1 kB] Fetched 27.1 kB in 0s (1593 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp77qpripj/python3-pluggy_1.6.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libzstd1 arm64 1.5.7+dfsg-2 [260 kB] Fetched 260 kB in 0s (12.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqzwlcrvj/libzstd1_1.5.7+dfsg-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libllvm19 arm64 1:19.1.7-7 [23.2 MB] Fetched 23.2 MB in 0s (169 MB/s) dpkg-name: info: moved 'libllvm19_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmpxm4sstms/libllvm19_19.1.7-7_arm64.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 (1004 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp_5_rn0v/ssl-cert_1.1.3_all.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 (5520 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpacgjdr0_/libz3-dev_4.13.3-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 gcc-15 arm64 15.2.0-4 [511 kB] Fetched 511 kB in 0s (23.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzgyamf4o/gcc-15_15.2.0-4_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 (12.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp25zlhvdt/sed_4.9-2+b1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libp11-kit0 arm64 0.25.9-2 [420 kB] Fetched 420 kB in 0s (8718 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnsrr9p5b/libp11-kit0_0.25.9-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libcrypt-dev arm64 1:4.4.38-1 [123 kB] Fetched 123 kB in 0s (6204 kB/s) dpkg-name: info: moved 'libcrypt-dev_1%3a4.4.38-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp3f36jqrn/libcrypt-dev_4.4.38-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 perl arm64 5.40.1-6 [267 kB] Fetched 267 kB in 0s (13.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpikaxz466/perl_5.40.1-6_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 util-linux arm64 2.41.2-3 [1121 kB] Fetched 1121 kB in 0s (41.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuaigd0xh/util-linux_2.41.2-3_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 (31.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa103yob6/shared-mime-info_2.4-5+b3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 postgresql-server-dev-18 arm64 18.0-1 [1369 kB] Fetched 1369 kB in 0s (48.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6qukhau3/postgresql-server-dev-18_18.0-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Fetched 308 kB in 0s (15.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphfnv7791/libbrotli-dev_1.1.0-2+b7_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc-bin arm64 2.41-12 [551 kB] Fetched 551 kB in 0s (26.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt7ucnss9/libc-bin_2.41-12_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 (737 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp032eh1v5/libraqm0_0.10.3-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 librav1e0.8 arm64 0.8.1-5 [688 kB] Fetched 688 kB in 0s (29.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp46512aoa/librav1e0.8_0.8.1-5_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 liblz4-1 arm64 1.10.0-4 [60.0 kB] Fetched 60.0 kB in 0s (3450 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplj2r1bfm/liblz4-1_1.10.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libtool all 2.5.4-5 [540 kB] Fetched 540 kB in 0s (25.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppunam536/libtool_2.5.4-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libfontconfig-dev arm64 2.15.0-2.4 [412 kB] Fetched 412 kB in 0s (19.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7ih8b3lq/libfontconfig-dev_2.15.0-2.4_arm64.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 (5907 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5wa8l77f/python3-jinja2_3.1.6-1_all.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 (2242 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjxvjwihb/bzip2_1.0.8-6_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Fetched 151 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwibw0r3x/liblcms2-2_2.16-2_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libglib2.0-dev-bin arm64 2.84.4-3 [54.7 kB] Fetched 54.7 kB in 0s (2999 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9ntc9k0s/libglib2.0-dev-bin_2.84.4-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libclang1-19 arm64 1:19.1.7-7 [6842 kB] Fetched 6842 kB in 0s (98.2 MB/s) dpkg-name: info: moved 'libclang1-19_1%3a19.1.7-7_arm64.deb' to '/srv/rebuilderd/tmp/tmp3g5eyi3v/libclang1-19_19.1.7-7_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libselinux1-dev arm64 3.8.1-1 [172 kB] Fetched 172 kB in 0s (9257 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx0ujy7bz/libselinux1-dev_3.8.1-1_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 (4109 kB/s) dpkg-name: info: moved 'libice-dev_2%3a1.1.1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp16r_lflz/libice-dev_1.1.1-1_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libmagickcore-7.q16-10 arm64 8:7.1.2.3+dfsg1-1 [1660 kB] Fetched 1660 kB in 0s (52.4 MB/s) dpkg-name: info: moved 'libmagickcore-7.q16-10_8%3a7.1.2.3+dfsg1-1_arm64.deb' to '/srv/rebuilderd/tmp/tmp_4gpu8cb/libmagickcore-7.q16-10_7.1.2.3+dfsg1-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libimagequant0 arm64 4.4.0-3 [216 kB] Fetched 216 kB in 0s (11.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_bsy_7dx/libimagequant0_4.4.0-3_arm64.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 (13.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg05grxd7/libpcre2-16-0_10.46-1_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 python3-dev arm64 3.13.7-1 [26.1 kB] Fetched 26.1 kB in 0s (1529 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv0m351wi/python3-dev_3.13.7-1_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 (6875 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphpfz593l/libbsd0_0.12.2-2_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 (6750 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp07iyzrc9/libngtcp2-16_1.16.0-1_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 (4980 kB/s) dpkg-name: info: moved 'xfonts-utils_1%3a7.7+7_arm64.deb' to '/srv/rebuilderd/tmp/tmpm6nm12mr/xfonts-utils_7.7+7_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 (229 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp20mvkc_p/libboost-regex-dev_1.83.0.2+b2_arm64.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 (291 kB/s) dpkg-name: info: moved 'gcc_4%3a15.2.0-4_arm64.deb' to '/srv/rebuilderd/tmp/tmp6b4nog6e/gcc_15.2.0-4_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 bsdextrautils arm64 2.41.2-3 [96.7 kB] Fetched 96.7 kB in 0s (5480 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpphaou5ia/bsdextrautils_2.41.2-3_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libc-dev-bin arm64 2.41-12 [57.4 kB] Fetched 57.4 kB in 0s (3412 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzofxukzy/libc-dev-bin_2.41-12_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 perl-base arm64 5.40.1-6 [1527 kB] Fetched 1527 kB in 0s (60.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr2jt1vmc/perl-base_5.40.1-6_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 (2815 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdg841dfq/libmpc3_1.3.1-2_arm64.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Fetched 24.9 kB in 0s (1458 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps4md6b63/libcom-err2_1.47.2-3+b3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 libglib2.0-bin arm64 2.84.4-3 [126 kB] Fetched 126 kB in 0s (7003 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp49h98ocv/libglib2.0-bin_2.84.4-3_arm64.deb' Get:1 http://snapshot.debian.org/archive/debian/20251009T082525Z sid/main arm64 x11-common all 1:7.7+25 [217 kB] Fetched 217 kB in 0s (11.8 MB/s) dpkg-name: info: moved 'x11-common_1%3a7.7+25_all.deb' to '/srv/rebuilderd/tmp/tmp3ynp7xw6/x11-common_7.7+25_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 libthai-data all 0.1.29-2 [168 kB] Fetched 168 kB in 0s (16.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt3iypn2t/libthai-data_0.1.29-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 architecture-properties arm64 0.2.6 [2336 B] Fetched 2336 B in 0s (128 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp05okjp8k/architecture-properties_0.2.6_arm64.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 (3876 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnmdxq2_l/libgraphite2-3_1.3.14-11_arm64.deb' Downloading dependency 381 of 508: libbz2-1.0:arm64=1.0.8-6 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dependency 504 of 508: libthai-data:arm64=0.1.29-2 Downloading dependency 505 of 508: architecture-properties:arm64=0.2.6 Downloading dependency 506 of 508: libgraphite2-3:arm64=1.3.14-11 Downloading dependency 507 of 508: python3-urllib3:arm64=2.5.0-1Get:1 http://deb.debian.org/debian unstable/main arm64 python3-urllib3 all 2.5.0-1 [116 kB] Fetched 116 kB in 0s (6071 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpclzm_hzo/python3-urllib3_2.5.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main arm64 xz-utils arm64 5.8.1-2 [657 kB] Fetched 657 kB in 0s (29.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps7p4r6u0/xz-utils_5.8.1-2_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-buildpackage: info: host architecture arm64 dpkg-source --before-build . debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/debootsnap-dummy/ dh_install dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'debootsnap-dummy' in '../debootsnap-dummy_1.0_all.deb'. dpkg-genbuildinfo --build=binary -O../debootsnap-dummy_1.0_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/tmps43iiagi/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.VoTNpZrin9 as tempdir I: running --setup-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/setup00.sh /srv/rebuilderd/tmp/mmdebstrap.VoTNpZrin9 127.0.0.1 - - [19/Nov/2025 20:07:31] code 404, message File not found 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:43403 ./ InRelease 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./Release HTTP/1.1" 200 - Get:2 http://localhost:43403 ./ Release [462 B] 127.0.0.1 - - [19/Nov/2025 20:07:31] code 404, message File not found 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:43403 ./ Release.gpg 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./Packages HTTP/1.1" 200 - Get:4 http://localhost:43403 ./ Packages [789 kB] Fetched 790 kB in 0s (10.9 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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127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./libsmartcols1_2.41.2-3_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./libudev1_258-1_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./libuuid1_2.41.2-3_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./util-linux_2.41.2-3_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./libdebconfclient0_0.280_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./base-passwd_3.6.7_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./init-system-helpers_1.69_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./libc-bin_2.41-12_arm64.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./ncurses-base_6.5%2b20250216-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [19/Nov/2025 20:07:31] "GET /./sysvinit-utils_3.14-4_arm64.deb HTTP/1.1" 200 - I: extracting archives... I: running --extract-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/extract00.sh /srv/rebuilderd/tmp/mmdebstrap.VoTNpZrin9 127.0.0.1 - - [19/Nov/2025 20:07:35] code 404, message File not found 127.0.0.1 - - [19/Nov/2025 20:07:35] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:43403 ./ InRelease 127.0.0.1 - - [19/Nov/2025 20:07:35] "GET /./Release HTTP/1.1" 304 - Hit:2 http://localhost:43403 ./ Release 127.0.0.1 - - [19/Nov/2025 20:07:35] code 404, message File not found 127.0.0.1 - - [19/Nov/2025 20:07:35] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:43403 ./ Release.gpg Reading package lists... usr-is-merged found but not real -- not running merged-usr extract hook I: installing essential packages... 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Building dependency tree... Reading state information... gzip is already the newest version (1.13-1). python3-defusedxml is already the newest version (0.7.1-3). python3-defusedxml set to manually installed. libboost-atomic1.83-dev is already the newest version (1.83.0-5). libboost-atomic1.83-dev set to manually installed. catch2 is already the newest version (3.7.1-0.6). catch2 set to manually installed. libjpeg62-turbo is already the newest version (1:2.1.5-4). libjpeg62-turbo set to manually installed. g++-15 is already the newest version (15.2.0-4). g++-15 set to manually installed. mawk is already the newest version (1.3.4.20250131-1). libblas3 is already the newest version (3.12.1-7). libblas3 set to manually installed. liblerc4 is already the newest version (4.0.0+ds-5). liblerc4 set to manually installed. libbinutils is already the newest version (2.45-7). libbinutils set to manually installed. libpam-runtime is already the newest version (1.7.0-5). libcatch2-dev is already the newest version (3.7.1-0.6). libcatch2-dev set to manually installed. libstdc++-14-dev is already the newest version (14.3.0-8). libstdc++-14-dev set to manually installed. libnuma1 is already the newest version (2.0.19-1). libnuma1 set to manually installed. libgcc-15-dev is already the newest version (15.2.0-4). libgcc-15-dev set to manually installed. libio-pty-perl is already the newest version (1:1.20-1+b3). libio-pty-perl set to manually installed. libmpfr6 is already the newest version (4.2.2-2). libmpfr6 set to manually installed. libmaeparser1 is already the newest version (1.3.3-3). libmaeparser1 set to manually installed. texlive-pictures is already the newest version (2025.20250927-3). texlive-pictures set to manually installed. libpaper-utils is already the newest version (2.2.5-0.3+b2). libpaper-utils set to manually installed. libgdbm-compat4t64 is already the newest version (1.26-1). libgdbm-compat4t64 set to manually installed. libncurses6 is already the newest version (6.5+20250216-2). libncurses6 set to manually installed. gcc-14-base is already the newest version (14.3.0-8). gcc-14-base set to manually installed. libaudit-common is already the newest version (1:4.1.2-1). icu-devtools is already the newest version (76.1-4). icu-devtools set to manually installed. libncursesw6 is already the newest version (6.5+20250216-2). libncursesw6 set to manually installed. libnghttp3-9 is already the newest version (1.12.0-1). libnghttp3-9 set to manually installed. x11proto-dev is already the newest version (2024.1-1). x11proto-dev set to manually installed. libasan8 is already the newest version (15.2.0-4). libasan8 set to manually installed. libboost-chrono1.83.0t64 is already the newest version (1.83.0-5). libboost-chrono1.83.0t64 set to manually installed. libboost-regex1.83-dev is already the newest version (1.83.0-5). libboost-regex1.83-dev set to manually installed. rpcsvc-proto is already the newest version (1.4.3-1+b1). rpcsvc-proto set to manually installed. 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manually installed. libxext6 is already the newest version (2:1.3.4-1+b3). libxext6 set to manually installed. imagemagick-7-common is already the newest version (8:7.1.2.3+dfsg1-1). imagemagick-7-common set to manually installed. libcrypt1 is already the newest version (1:4.4.38-1). libboost-thread1.83-dev is already the newest version (1.83.0-5). libboost-thread1.83-dev set to manually installed. libjbig0 is already the newest version (2.1-6.1+b2). libjbig0 set to manually installed. libpcre2-8-0 is already the newest version (10.46-1). llvm-19-runtime is already the newest version (1:19.1.7-7). llvm-19-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. findutils is already the newest version (4.10.0-3). libboost-iostreams-dev is already the newest version (1.83.0.2+b2). libboost-iostreams-dev set to manually installed. libxpm4 is already the newest version (1:3.5.17-1+b3). libxpm4 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. libproc2-0 is already the newest version (2:4.0.4-9). libproc2-0 set to manually installed. libobjc4 is already the newest version (15.2.0-4). libobjc4 set to manually installed. libboost-date-time1.83-dev is already the newest version (1.83.0-5). libboost-date-time1.83-dev set to manually installed. libxcb-shm0-dev is already the newest version (1.17.0-2+b1). libxcb-shm0-dev 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. imagemagick is already the newest version (8:7.1.2.3+dfsg1-1). imagemagick set to manually installed. libboost1.83-dev is already the newest version (1.83.0-5). libboost1.83-dev set to manually installed. python3-pytz is already the newest version (2025.2-4). python3-pytz set to manually installed. python3-roman-numerals is already the newest version (3.1.0-2). python3-roman-numerals set to manually installed. libboost-system1.83.0 is already the newest version (1.83.0-5). libboost-system1.83.0 set to manually installed. libx11-data is already the newest version (2:1.8.12-1). libx11-data set to manually installed. libk5crypto3 is already the newest version (1.21.3-5). libk5crypto3 set to manually installed. libdebconfclient0 is already the newest version (0.280). libxt6t64 is already the newest version (1:1.2.1-1.3). libxt6t64 set to manually installed. binutils-aarch64-linux-gnu is already the newest version (2.45-7). binutils-aarch64-linux-gnu set to manually installed. libltdl7 is already the newest version (2.5.4-5). libltdl7 set to manually installed. libsqlite3-0 is already the newest version (3.46.1-8). libsqlite3-0 set to manually installed. libpython3-dev is already the newest version (3.13.7-1). libpython3-dev set to manually installed. gcc-15-base is already the newest version (15.2.0-4). python3-pandas is already the newest version (2.3.2+dfsg-2). python3-pandas set to manually installed. libpam-modules-bin is already the newest version (1.7.0-5). libunistring5 is already the newest version (1.3-2). libunistring5 set to manually installed. texlive-latex-extra is already the newest version (2025.20250927-3). texlive-latex-extra set to manually installed. libatomic1 is already the newest version (15.2.0-4). libatomic1 set to manually installed. libgmp10 is already the newest version (2:6.3.0+dfsg-5). libgomp1 is already the newest version (15.2.0-4). libgomp1 set to manually installed. fontconfig-config is already the newest version (2.15.0-2.4). fontconfig-config set to manually installed. libfile-stripnondeterminism-perl is already the newest version (1.15.0-1). libfile-stripnondeterminism-perl set to manually installed. libstdc++6 is already the newest version (15.2.0-4). libstdc++6 set to manually installed. libtasn1-6 is already the newest version (4.20.0-2). libtasn1-6 set to manually installed. libblkid-dev is already the newest version (2.41.2-3). libblkid-dev set to manually installed. login.defs is already the newest version (1:4.18.0-1). login.defs set to manually installed. libwebpdemux2 is already the newest version (1.5.0-0.1). libwebpdemux2 set to manually installed. m4 is already the newest version (1.4.20-2). m4 set to manually installed. libpkgconf3 is already the newest version (1.8.1-4). libpkgconf3 set to manually installed. postgresql-server-dev-all is already the newest version (284). postgresql-server-dev-all set to manually installed. libelf1t64 is already the newest version (0.193-3). libelf1t64 set to manually installed. texlive-base is already the newest version (2025.20250927-3). texlive-base set to manually installed. libsystemd0 is already the newest version (258-1). libnghttp2-14 is already the newest version (1.64.0-1.1+b1). libnghttp2-14 set to manually installed. libapache-pom-java is already the newest version (33-2). libapache-pom-java set to manually installed. libtsan2 is already the newest version (15.2.0-4). libtsan2 set to manually installed. python3.13 is already the newest version (3.13.7-1). python3.13 set to manually installed. libmagickwand-7.q16-10 is already the newest version (8:7.1.2.3+dfsg1-1). libmagickwand-7.q16-10 set to manually installed. libitm1 is already the newest version (15.2.0-4). libitm1 set to manually installed. libclang-common-19-dev is already the newest version (1:19.1.7-7). libclang-common-19-dev set to manually installed. libpng16-16t64 is already the newest version (1.6.50-1). libpng16-16t64 set to manually installed. python3-typing-extensions is already the newest version (4.15.0-1). python3-typing-extensions set to manually installed. libpotrace0 is already the newest version (1.16-2+b2). libpotrace0 set to manually installed. libidn2-0 is already the newest version (2.3.8-4). libidn2-0 set to manually installed. libxau-dev is already the newest version (1:1.0.11-1). libxau-dev set to manually installed. libx11-6 is already the newest version (2:1.8.12-1). libx11-6 set to manually installed. libisl23 is already the newest version (0.27-1). libisl23 set to manually installed. libssl3t64 is already the newest version (3.5.4-1). python3-greenlet is already the newest version (3.1.0-1+b2). python3-greenlet set to manually installed. xtrans-dev is already the newest version (1.6.0-1). xtrans-dev set to manually installed. libexpat1 is already the newest version (2.7.3-1). libexpat1 set to manually installed. debconf is already the newest version (1.5.91). libpixman-1-0 is already the newest version (0.46.4-1). libpixman-1-0 set to manually installed. libgcc-s1 is already the newest version (15.2.0-4). python3-imagesize is already the newest version (1.4.1-1). python3-imagesize set to manually installed. python3-charset-normalizer is already the newest version (3.4.3-1). python3-charset-normalizer set to manually installed. automake is already the newest version (1:1.17-4). automake set to manually installed. docutils-common is already the newest version (0.21.2+dfsg-2). docutils-common set to manually installed. libharfbuzz0b is already the newest version (12.1.0-1). libharfbuzz0b set to manually installed. python3-iniconfig is already the newest version (1.1.1-2). python3-iniconfig set to manually installed. media-types is already the newest version (13.0.0). media-types set to manually installed. girepository-tools is already the newest version (2.84.4-3). girepository-tools set to manually installed. libxrender1 is already the newest version (1:0.9.12-1). libxrender1 set to manually installed. readline-common is already the newest version (8.3-3). readline-common set to manually installed. postgresql-common is already the newest version (284). postgresql-common set to manually installed. tex-gyre is already the newest version (20180621-6). tex-gyre set to manually installed. libpixman-1-dev is already the newest version (0.46.4-1). libpixman-1-dev set to manually installed. libde265-0 is already the newest version (1.0.16-1). libde265-0 set to manually installed. libselinux1 is already the newest version (3.8.1-1). libudev1 is already the newest version (258-1). libreadline8t64 is already the newest version (8.3-3). libreadline8t64 set to manually installed. xfonts-encodings is already the newest version (1:1.0.4-2.2). xfonts-encodings set to manually installed. file is already the newest version (1:5.46-5). file set to manually installed. libboost-regex1.83.0 is already the newest version (1.83.0-5). libboost-regex1.83.0 set to manually installed. libfribidi0 is already the newest version (1.0.16-3). libfribidi0 set to manually installed. libcap-ng0 is already the newest version (0.8.5-4+b1). libtiff6 is already the newest version (4.7.1-1). libtiff6 set to manually installed. libxmu6 is already the newest version (2:1.1.3-3+b4). libxmu6 set to manually installed. fonts-lmodern is already the newest version (2.005-1). fonts-lmodern set to manually installed. libblkid1 is already the newest version (2.41.2-3). libxapian30 is already the newest version (1.4.29-3). libxapian30 set to manually installed. libdeflate0 is already the newest version (1.23-2). libdeflate0 set to manually installed. libboost-python1.83-dev is already the newest version (1.83.0-5). libboost-python1.83-dev set to manually installed. gettext is already the newest version (0.23.1-2+b1). gettext set to manually installed. libgnutls30t64 is already the newest version (3.8.10-2). libgnutls30t64 set to manually installed. intltool-debian is already the newest version (0.35.0+20060710.6). intltool-debian set to manually installed. libbz2-dev is already the newest version (1.0.8-6). libbz2-dev set to manually installed. libcurl4t64 is already the newest version (8.16.0-4). libcurl4t64 set to manually installed. libxcb-shm0 is already the newest version (1.17.0-2+b1). libxcb-shm0 set to manually installed. preview-latex-style is already the newest version (13.2-1.1). preview-latex-style set to manually installed. libopenjp2-7 is already the newest version (2.5.3-2.1). libopenjp2-7 set to manually installed. libgdk-pixbuf-2.0-0 is already the newest version (2.44.3+dfsg-3). libgdk-pixbuf-2.0-0 set to manually installed. tex-common is already the newest version (6.19). tex-common set to manually installed. libfmt10 is already the newest version (10.1.1+ds1-4). libfmt10 set to manually installed. python3-numpy is already the newest version (1:2.2.4+ds-1.2). python3-numpy set to manually installed. libboost-serialization1.83.0 is already the newest version (1.83.0-5). libboost-serialization1.83.0 set to manually installed. dpkg is already the newest version (1.22.21). libngtcp2-crypto-ossl0 is already the newest version (1.16.0-1). libngtcp2-crypto-ossl0 set to manually installed. libtexlua53-5 is already the newest version (2025.20250727.75242+ds-4). libtexlua53-5 set to manually installed. libctf-nobfd0 is already the newest version (2.45-7). libctf-nobfd0 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. g++ is already the newest version (4:15.2.0-4). g++ set to manually installed. hostname is already the newest version (3.25). pkgconf-bin is already the newest version (1.8.1-4). pkgconf-bin set to manually installed. uuid-dev is already the newest version (2.41.2-3). uuid-dev set to manually installed. gcc-15-aarch64-linux-gnu is already the newest version (15.2.0-4). gcc-15-aarch64-linux-gnu set to manually installed. libkpathsea6 is already the newest version (2025.20250727.75242+ds-4). libkpathsea6 set to manually installed. man-db is already the newest version (2.13.1-1). man-db set to manually installed. python3-pandas-lib is already the newest version (2.3.2+dfsg-2). python3-pandas-lib set to manually installed. libbz2-1.0 is already the newest version (1.0.8-6). binutils is already the newest version (2.45-7). binutils set to manually installed. ncurses-base is already the newest version (6.5+20250216-2). libgav1-1 is already the newest version (0.19.0-3+b1). libgav1-1 set to manually installed. python3.13-dev is already the newest version (3.13.7-1). python3.13-dev set to manually installed. libncurses-dev is already the newest version (6.5+20250216-2). libncurses-dev set to manually installed. texlive-latex-base is already the newest version (2025.20250927-3). texlive-latex-base set to manually installed. imagemagick-7.q16 is already the newest version (8:7.1.2.3+dfsg1-1). imagemagick-7.q16 set to manually installed. debianutils is already the newest version (5.23.2). libgio-2.0-dev-bin is already the newest version (2.84.4-3). libgio-2.0-dev-bin set to manually installed. libpangocairo-1.0-0 is already the newest version (1.56.3-2). libpangocairo-1.0-0 set to manually installed. libmpfi0 is already the newest version (1.5.4+ds-4). libmpfi0 set to manually installed. libtext-charwidth-perl is already the newest version (0.04-11+b4). libtext-charwidth-perl set to manually installed. python3-markdown-it is already the newest version (3.0.0-3). python3-markdown-it set to manually installed. fonts-dejavu-core is already the newest version (2.37-8). fonts-dejavu-core set to manually installed. libboost-numpy1.83-dev is already the newest version (1.83.0-5). libboost-numpy1.83-dev set to manually installed. python3 is already the newest version (3.13.7-1). python3 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. libpsl5t64 is already the newest version (0.21.2-1.1+b1). libpsl5t64 set to manually installed. libmount1 is already the newest version (2.41.2-3). llvm-19 is already the newest version (1:19.1.7-7). llvm-19 set to manually installed. libboost-thread-dev is already the newest version (1.83.0.2+b2). libboost-thread-dev set to manually installed. libyuv0 is already the newest version (0.0.1919.20250919-1). libyuv0 set to manually installed. python3-yaml is already the newest version (6.0.2-2). python3-yaml set to manually installed. libboost-program-options1.83-dev is already the newest version (1.83.0-5). libboost-program-options1.83-dev set to manually installed. cpp is already the newest version (4:15.2.0-4). cpp set to manually installed. native-architecture is already the newest version (0.2.6). native-architecture set to manually installed. librhash1 is already the newest version (1.4.6-1). librhash1 set to manually installed. libgprofng0 is already the newest version (2.45-7). libgprofng0 set to manually installed. adduser is already the newest version (3.153). adduser set to manually installed. libpcre2-32-0 is already the newest version (10.46-1). libpcre2-32-0 set to manually installed. libptexenc1 is already the newest version (2025.20250727.75242+ds-4). libptexenc1 set to manually installed. librsvg2-2 is already the newest version (2.60.0+dfsg-1+b1). librsvg2-2 set to manually installed. libcairo2 is already the newest version (1.18.4-1+b1). libcairo2 set to manually installed. texlive-luatex is already the newest version (2025.20250927-3). texlive-luatex set to manually installed. libboost-chrono1.83-dev is already the newest version (1.83.0-5). libboost-chrono1.83-dev set to manually installed. patch is already the newest version (2.8-2). patch set to manually installed. libpango-1.0-0 is already the newest version (1.56.3-2). libpango-1.0-0 set to manually installed. libcoordgen-dev is already the newest version (3.0.2-3). libcoordgen-dev set to manually installed. llvm-19-dev is already the newest version (1:19.1.7-7). llvm-19-dev 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. libsepol2 is already the newest version (3.8.1-1). libsepol2 set to manually installed. python3-sqlalchemy is already the newest version (2.0.43+ds1-1). python3-sqlalchemy set to manually installed. python3-docutils is already the newest version (0.21.2+dfsg-2). python3-docutils set to manually installed. libpam0g is already the newest version (1.7.0-5). libaom3 is already the newest version (3.13.1-1). libaom3 set to manually installed. libc6 is already the newest version (2.41-12). libavif16 is already the newest version (1.3.0-1+b1). libavif16 set to manually installed. librtmp1 is already the newest version (2.4+20151223.gitfa8646d.1-3). librtmp1 set to manually installed. libheif-plugin-libde265 is already the newest version (1.20.2-2+b1). libheif-plugin-libde265 set to manually installed. libxi6 is already the newest version (2:1.8.2-1). libxi6 set to manually installed. python3-chardet is already the newest version (5.2.0+dfsg-2). python3-chardet set to manually installed. libffi-dev is already the newest version (3.5.2-2). libffi-dev set to manually installed. zlib1g-dev is already the newest version (1:1.3.dfsg+really1.3.1-1+b1). zlib1g-dev set to manually installed. dh-python is already the newest version (6.20250414). dh-python set to manually installed. libsframe2 is already the newest version (2.45-7). libsframe2 set to manually installed. libabsl20240722 is already the newest version (20240722.0-4). libabsl20240722 set to manually installed. python3-sphinx is already the newest version (8.2.3-7). python3-sphinx set to manually installed. libmaeparser-dev is already the newest version (1.3.3-3). libmaeparser-dev set to manually installed. diffutils is already the newest version (1:3.10-4). libhogweed6t64 is already the newest version (3.10.2-1). libhogweed6t64 set to manually installed. libsvtav1enc2 is already the newest version (2.3.0+dfsg-1). libsvtav1enc2 set to manually installed. libpcre2-posix3 is already the newest version (10.46-1). libpcre2-posix3 set to manually installed. libice6 is already the newest version (2:1.1.1-1). libice6 set to manually installed. libxcb1 is already the newest version (1.17.0-2+b1). libxcb1 set to manually installed. libthai0 is already the newest version (0.1.29-2+b1). libthai0 set to manually installed. libacl1 is already the newest version (2.3.2-2+b1). libdb5.3t64 is already the newest version (5.3.28+dfsg2-10). latexmk is already the newest version (1:4.87~ds-1). latexmk set to manually installed. liblzma-dev is already the newest version (5.8.1-2). liblzma-dev set to manually installed. python3-pytest is already the newest version (8.4.2-1). python3-pytest set to manually installed. python-babel-localedata is already the newest version (2.17.0-1). python-babel-localedata set to manually installed. libarchive-zip-perl is already the newest version (1.68-1). libarchive-zip-perl set to manually installed. libicu-dev is already the newest version (76.1-4). libicu-dev set to manually installed. libboost-thread1.83.0 is already the newest version (1.83.0-5). libboost-thread1.83.0 set to manually installed. libheif1 is already the newest version (1.20.2-2+b1). libheif1 set to manually installed. libxcb-render0-dev is already the newest version (1.17.0-2+b1). libxcb-render0-dev set to manually installed. pandoc-data is already the newest version (3.1.11.1-3). pandoc-data set to manually installed. tar is already the newest version (1.35+dfsg-3.1). python3-mdurl is already the newest version (0.1.2-1). python3-mdurl set to manually installed. python3-pluggy is already the newest version (1.6.0-1). python3-pluggy set to manually installed. libzstd1 is already the newest version (1.5.7+dfsg-2). libllvm19 is already the newest version (1:19.1.7-7). libllvm19 set to manually installed. ssl-cert is already the newest version (1.1.3). ssl-cert set to manually installed. libz3-dev is already the newest version (4.13.3-1). libz3-dev set to manually installed. gcc-15 is already the newest version (15.2.0-4). gcc-15 set to manually installed. sed is already the newest version (4.9-2+b1). libp11-kit0 is already the newest version (0.25.9-2). libp11-kit0 set to manually installed. libcrypt-dev is already the newest version (1:4.4.38-1). libcrypt-dev set to manually installed. perl is already the newest version (5.40.1-6). perl set to manually installed. util-linux is already the newest version (2.41.2-3). shared-mime-info is already the newest version (2.4-5+b3). shared-mime-info set to manually installed. postgresql-server-dev-18 is already the newest version (18.0-1). postgresql-server-dev-18 set to manually installed. libbrotli-dev is already the newest version (1.1.0-2+b7). libbrotli-dev set to manually installed. libc-bin is already the newest version (2.41-12). libraqm0 is already the newest version (0.10.3-1). libraqm0 set to manually installed. librav1e0.8 is already the newest version (0.8.1-5). librav1e0.8 set to manually installed. liblz4-1 is already the newest version (1.10.0-4). liblz4-1 set to manually installed. libtool is already the newest version (2.5.4-5). libtool set to manually installed. libfontconfig-dev is already the newest version (2.15.0-2.4). libfontconfig-dev set to manually installed. python3-jinja2 is already the newest version (3.1.6-1). python3-jinja2 set to manually installed. bzip2 is already the newest version (1.0.8-6). bzip2 set to manually installed. liblcms2-2 is already the newest version (2.16-2). liblcms2-2 set to manually installed. libglib2.0-dev-bin is already the newest version (2.84.4-3). libglib2.0-dev-bin set to manually installed. libclang1-19 is already the newest version (1:19.1.7-7). libclang1-19 set to manually installed. libselinux1-dev is already the newest version (3.8.1-1). libselinux1-dev set to manually installed. libice-dev is already the newest version (2:1.1.1-1). libice-dev set to manually installed. libmagickcore-7.q16-10 is already the newest version (8:7.1.2.3+dfsg1-1). libmagickcore-7.q16-10 set to manually installed. libimagequant0 is already the newest version (4.4.0-3). libimagequant0 set to manually installed. libpcre2-16-0 is already the newest version (10.46-1). libpcre2-16-0 set to manually installed. python3-dev is already the newest version (3.13.7-1). python3-dev set to manually installed. libbsd0 is already the newest version (0.12.2-2). libbsd0 set to manually installed. libngtcp2-16 is already the newest version (1.16.0-1). libngtcp2-16 set to manually installed. xfonts-utils is already the newest version (1:7.7+7). xfonts-utils set to manually installed. libboost-regex-dev is already the newest version (1.83.0.2+b2). libboost-regex-dev set to manually installed. gcc is already the newest version (4:15.2.0-4). gcc set to manually installed. bsdextrautils is already the newest version (2.41.2-3). bsdextrautils set to manually installed. libc-dev-bin is already the newest version (2.41-12). libc-dev-bin set to manually installed. perl-base is already the newest version (5.40.1-6). libmpc3 is already the newest version (1.3.1-2). libmpc3 set to manually installed. libcom-err2 is already the newest version (1.47.2-3+b3). libcom-err2 set to manually installed. libglib2.0-bin is already the newest version (2.84.4-3). libglib2.0-bin set to manually installed. x11-common is already the newest version (1:7.7+25). x11-common set to manually installed. libthai-data is already the newest version (0.1.29-2). libthai-data set to manually installed. architecture-properties is already the newest version (0.2.6). architecture-properties set to manually installed. libgraphite2-3 is already the newest version (1.3.14-11). libgraphite2-3 set to manually installed. python3-urllib3 is already the newest version (2.5.0-1). python3-urllib3 set to manually installed. xz-utils is already the newest version (5.8.1-2). xz-utils 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.VoTNpZrin9 (Reading database ... 83685 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.VoTNpZrin9 I: running special hook: download /pkglist ./pkglist I: running --customize-hook in shell: sh -c 'rm "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.VoTNpZrin9 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.VoTNpZrin9... I: success in 322.2019 seconds Downloading dependency 508 of 508: xz-utils:arm64=5.8.1-2 env --chdir=/srv/rebuilderd/tmp/rebuilderdqw0fyl/out DEB_BUILD_OPTIONS=parallel=4 LANG=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 SOURCE_DATE_EPOCH=1759960448 SBUILD_CONFIG=/srv/rebuilderd/tmp/debrebuildnQG47b/debrebuild.sbuildrc.rvBg4r7Xow77 sbuild --build=arm64 --host=arm64 --no-source --arch-any --no-arch-all --chroot=/srv/rebuilderd/tmp/debrebuildnQG47b/debrebuild.tar.KviDhixts3Tl --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/rebuilderdqw0fyl/inputs/rdkit_202503.6-2.dsc I: consider moving your ~/.sbuildrc to /srv/rebuilderd/.config/sbuild/config.pl The Debian buildds switched to the "unshare" backend and sbuild will default to it in the future. To start using "unshare" add this to your `~/.config/sbuild/config.pl`: $chroot_mode = "unshare"; If you want to keep the old "schroot" mode even in the future, add the following to your `~/.config/sbuild/config.pl`: $chroot_mode = "schroot"; $schroot = "schroot"; sbuild (Debian sbuild) 0.89.3+deb13u1 (16 August 2025) on codethink02-arm64 +==============================================================================+ | rdkit 202503.6-2 (arm64) Wed, 19 Nov 2025 20:12:54 +0000 | +==============================================================================+ Package: rdkit Version: 202503.6-2 Source Version: 202503.6-2 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/debrebuildnQG47b/debrebuild.tar.KviDhixts3Tl to /srv/rebuilderd/tmp/tmp.sbuild.MHkmj1nwnR... I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... I: Setting up apt archive... +------------------------------------------------------------------------------+ | Fetch source files Wed, 19 Nov 2025 20:13:11 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/rebuilderd/tmp/rebuilderdqw0fyl/inputs/rdkit_202503.6-2.dsc exists in /srv/rebuilderd/tmp/rebuilderdqw0fyl/inputs; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Wed, 19 Nov 2025 20:13:14 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: architecture-is-64-bit, architecture-is-little-endian, bison, catch2, cmake, 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, 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-V2Sc90/apt_archive/sbuild-build-depends-main-dummy.deb'. Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies +------------------------------------------------------------------------------+ | Check architectures Wed, 19 Nov 2025 20:13:19 +0000 | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any all) +------------------------------------------------------------------------------+ | Build environment Wed, 19 Nov 2025 20:13:19 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.57+deb13-cloud-arm64 #1 SMP Debian 6.12.57-1 (2025-11-05) arm64 (aarch64) Toolchain package versions: binutils_2.45-7 dpkg-dev_1.22.21 g++-15_15.2.0-4 gcc-15_15.2.0-4 libc6-dev_2.41-12 libstdc++-14-dev_14.3.0-8 libstdc++-15-dev_15.2.0-4 libstdc++6_15.2.0-4 linux-libc-dev_6.16.11-1 Package versions: adduser_3.153 architecture-properties_0.2.6 autoconf_2.72-3.1 automake_1:1.17-4 autopoint_0.23.1-2 autotools-dev_20240727.1 base-files_14 base-passwd_3.6.7 bash_5.3-1 binutils_2.45-7 binutils-aarch64-linux-gnu_2.45-7 binutils-common_2.45-7 bison_2:3.8.2+dfsg-1+b2 bsdextrautils_2.41.2-3 build-essential_12.12 bzip2_1.0.8-6 ca-certificates_20250419 catch2_3.7.1-0.6 clang-19_1:19.1.7-7 cmake_4.1.1+really3.31.6-2 cmake-data_4.1.1+really3.31.6-2 coreutils_9.7-3 cpp_4:15.2.0-4 cpp-15_15.2.0-4 cpp-15-aarch64-linux-gnu_15.2.0-4 cpp-aarch64-linux-gnu_4:15.2.0-4 dash_0.5.12-12 debconf_1.5.91 debhelper_13.28 debianutils_5.23.2 dh-autoreconf_21 dh-python_6.20250414 dh-strip-nondeterminism_1.15.0-1 diffutils_1:3.10-4 docutils-common_0.21.2+dfsg-2 doxygen_1.9.8+ds-2.1 dpkg_1.22.21 dpkg-dev_1.22.21 dwz_0.16-2 file_1:5.46-5 findutils_4.10.0-3 flex_2.6.4-8.2+b4 fontconfig_2.15.0-2.4 fontconfig-config_2.15.0-2.4 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_15.2.0-4 g++-15-aarch64-linux-gnu_15.2.0-4 g++-aarch64-linux-gnu_4:15.2.0-4 gcc_4:15.2.0-4 gcc-14-base_14.3.0-8 gcc-15_15.2.0-4 gcc-15-aarch64-linux-gnu_15.2.0-4 gcc-15-base_15.2.0-4 gcc-aarch64-linux-gnu_4:15.2.0-4 gettext_0.23.1-2+b1 gettext-base_0.23.1-2+b1 girepository-tools_2.84.4-3 grep_3.12-1 groff-base_1.23.0-9 gzip_1.13-1 hicolor-icon-theme_0.18-2 hostname_3.25 icu-devtools_76.1-4 imagemagick_8:7.1.2.3+dfsg1-1 imagemagick-7-common_8:7.1.2.3+dfsg1-1 imagemagick-7.q16_8:7.1.2.3+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_3.13.1-1 libapache-pom-java_33-2 libarchive-zip-perl_1.68-1 libarchive13t64_3.7.4-4+b1 libasan8_15.2.0-4 libatomic1_15.2.0-4 libattr1_1:2.5.2-3 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1 libavif16_1.3.0-1+b1 libbinutils_2.45-7 libblas3_3.12.1-7 libblkid-dev_2.41.2-3 libblkid1_2.41.2-3 libboost-atomic1.83-dev_1.83.0-5 libboost-atomic1.83.0_1.83.0-5 libboost-chrono1.83-dev_1.83.0-5 libboost-chrono1.83.0t64_1.83.0-5 libboost-date-time1.83-dev_1.83.0-5 libboost-date-time1.83.0_1.83.0-5 libboost-dev_1.83.0.2+b2 libboost-iostreams-dev_1.83.0.2+b2 libboost-iostreams1.83-dev_1.83.0-5 libboost-iostreams1.83.0_1.83.0-5 libboost-numpy-dev_1.83.0.2+b2 libboost-numpy1.83-dev_1.83.0-5 libboost-numpy1.83.0_1.83.0-5 libboost-program-options-dev_1.83.0.2+b2 libboost-program-options1.83-dev_1.83.0-5 libboost-program-options1.83.0_1.83.0-5 libboost-python-dev_1.83.0.2+b2 libboost-python1.83-dev_1.83.0-5 libboost-python1.83.0_1.83.0-5 libboost-regex-dev_1.83.0.2+b2 libboost-regex1.83-dev_1.83.0-5 libboost-regex1.83.0_1.83.0-5 libboost-serialization1.83-dev_1.83.0-5 libboost-serialization1.83.0_1.83.0-5 libboost-system-dev_1.83.0.2+b2 libboost-system1.83-dev_1.83.0-5 libboost-system1.83.0_1.83.0-5 libboost-thread-dev_1.83.0.2+b2 libboost-thread1.83-dev_1.83.0-5 libboost-thread1.83.0_1.83.0-5 libboost1.83-dev_1.83.0-5 libbrotli-dev_1.1.0-2+b7 libbrotli1_1.1.0-2+b7 libbsd0_0.12.2-2 libbz2-1.0_1.0.8-6 libbz2-dev_1.0.8-6 libc-bin_2.41-12 libc-dev-bin_2.41-12 libc6_2.41-12 libc6-dev_2.41-12 libcairo-gobject2_1.18.4-1+b1 libcairo-script-interpreter2_1.18.4-1+b1 libcairo2_1.18.4-1+b1 libcairo2-dev_1.18.4-1+b1 libcap-ng0_0.8.5-4+b1 libcap2_1:2.75-10+b1 libcatch2-dev_3.7.1-0.6 libcc1-0_15.2.0-4 libclang-common-19-dev_1:19.1.7-7 libclang-cpp19_1:19.1.7-7 libclang1-19_1:19.1.7-7 libcom-err2_1.47.2-3+b3 libcommons-logging-java_1.3.0-2 libcommons-parent-java_56-1 libcoordgen-dev_3.0.2-3 libcoordgen3_3.0.2-3 libcrypt-dev_1:4.4.38-1 libcrypt1_1:4.4.38-1 libctf-nobfd0_2.45-7 libctf0_2.45-7 libcurl4t64_8.16.0-4 libdatrie1_0.2.13-4 libdav1d7_1.5.1-1 libdb5.3t64_5.3.28+dfsg2-10 libde265-0_1.0.16-1 libdebconfclient0_0.280 libdebhelper-perl_13.28 libdeflate0_1.23-2 libdpkg-perl_1.22.21 libedit2_3.1-20250104-1 libeigen3-dev_3.4.0-5 libelf1t64_0.193-3 libexpat1_2.7.3-1 libexpat1-dev_2.7.3-1 libffi-dev_3.5.2-2 libffi8_3.5.2-2 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_2.15.0-2.4 libfontconfig1_2.15.0-2.4 libfontenc1_1:1.1.8-1+b2 libfreetype-dev_2.13.3+dfsg-1 libfreetype6_2.13.3+dfsg-1 libfribidi0_1.0.16-3 libgav1-1_0.19.0-3+b1 libgc1_1:8.2.8-1 libgcc-14-dev_14.3.0-8 libgcc-15-dev_15.2.0-4 libgcc-s1_15.2.0-4 libgdbm-compat4t64_1.26-1 libgdbm6t64_1.26-1 libgdk-pixbuf-2.0-0_2.44.3+dfsg-3 libgdk-pixbuf2.0-common_2.44.3+dfsg-3 libgfortran5_15.2.0-4 libgio-2.0-dev_2.84.4-3 libgio-2.0-dev-bin_2.84.4-3 libgirepository-2.0-0_2.84.4-3 libglib2.0-0t64_2.84.4-3 libglib2.0-bin_2.84.4-3 libglib2.0-data_2.84.4-3 libglib2.0-dev_2.84.4-3 libglib2.0-dev-bin_2.84.4-3 libgmp10_2:6.3.0+dfsg-5 libgnutls30t64_3.8.10-2 libgomp1_15.2.0-4 libgprofng0_2.45-7 libgraphite2-3_1.3.14-11 libgssapi-krb5-2_1.21.3-5 libharfbuzz0b_12.1.0-1 libheif-plugin-dav1d_1.20.2-2+b1 libheif-plugin-libde265_1.20.2-2+b1 libheif1_1.20.2-2+b1 libhogweed6t64_3.10.2-1 libhwasan0_15.2.0-4 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_4.4.0-3 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_20231003.0-2 libisl23_0.27-1 libitm1_15.2.0-4 libjansson4_2.14-2+b3 libjbig0_2.1-6.1+b2 libjpeg62-turbo_1:2.1.5-4 libjs-sphinxdoc_8.2.3-7 libjson-perl_4.10000-1 libjsoncpp26_1.9.6-4 libk5crypto3_1.21.3-5 libkeyutils1_1.6.3-6 libkpathsea6_2025.20250727.75242+ds-4 libkrb5-3_1.21.3-5 libkrb5support0_1.21.3-5 liblapack3_3.12.1-7 liblcms2-2_2.16-2 libldap2_2.6.10+dfsg-1 liblerc4_4.0.0+ds-5 libllvm19_1:19.1.7-7 liblqr-1-0_0.4.2-2.1+b2 liblsan0_15.2.0-4 libltdl7_2.5.4-5 liblua5.4-0_5.4.8-1 liblz4-1_1.10.0-4 liblzma-dev_5.8.1-2 liblzma5_5.8.1-2 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_8:7.1.2.3+dfsg1-1 libmagickwand-7.q16-10_8:7.1.2.3+dfsg1-1 libmd0_1.1.0-2+b1 libmount-dev_2.41.2-3 libmount1_2.41.2-3 libmpc3_1.3.1-2 libmpfi0_1.5.4+ds-4 libmpfr6_4.2.2-2 libncurses-dev_6.5+20250216-2 libncurses6_6.5+20250216-2 libncursesw6_6.5+20250216-2 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_15.2.0-4 libobjc4_15.2.0-4 libopenjp2-7_2.5.3-2.1 libp11-kit0_0.25.9-2 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_1.56.3-2 libpangocairo-1.0-0_1.56.3-2 libpangoft2-1.0-0_1.56.3-2 libpaper-utils_2.2.5-0.3+b2 libpaper2_2.2.5-0.3+b2 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_5.40.1-6 libpfm4_4.13.0+git106-g3e4031b-1 libpipeline1_1.5.8-1 libpixman-1-0_0.46.4-1 libpixman-1-dev_0.46.4-1 libpkgconf3_1.8.1-4 libpng-dev_1.6.50-1 libpng16-16t64_1.6.50-1 libpotrace0_1.16-2+b2 libpq-dev_18.0-1 libpq5_18.0-1 libproc2-0_2:4.0.4-9 libpsl5t64_0.21.2-1.1+b1 libptexenc1_2025.20250727.75242+ds-4 libpython3-dev_3.13.7-1 libpython3-stdlib_3.13.7-1 libpython3.13_3.13.7-1 libpython3.13-dev_3.13.7-1 libpython3.13-minimal_3.13.7-1 libpython3.13-stdlib_3.13.7-1 libraqm0_0.10.3-1 librav1e0.8_0.8.1-5 libraw23t64_0.21.4-2 libreadline8t64_8.3-3 librhash1_1.4.6-1 librsvg2-2_2.60.0+dfsg-1+b1 librsvg2-bin_2.60.0+dfsg-1+b1 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 libselinux1_3.8.1-1 libselinux1-dev_3.8.1-1 libsemanage-common_3.8.1-1 libsemanage2_3.8.1-1 libsepol-dev_3.8.1-1 libsepol2_3.8.1-1 libsframe2_2.45-7 libsharpyuv0_1.5.0-0.1 libsm-dev_2:1.2.6-1 libsm6_2:1.2.6-1 libsmartcols1_2.41.2-3 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++-14-dev_14.3.0-8 libstdc++-15-dev_15.2.0-4 libstdc++6_15.2.0-4 libsvtav1enc2_2.3.0+dfsg-1 libsynctex2_2025.20250727.75242+ds-4 libsysprof-capture-4-dev_49.0-1 libsystemd0_258-1 libtasn1-6_4.20.0-2 libteckit0_2.5.12+ds1-1+b1 libtexlua53-5_2025.20250727.75242+ds-4 libtext-charwidth-perl_0.04-11+b4 libtext-wrapi18n-perl_0.06-10 libthai-data_0.1.29-2 libthai0_0.1.29-2+b1 libtiff6_4.7.1-1 libtinfo6_6.5+20250216-2 libtool_2.5.4-5 libtsan2_15.2.0-4 libubsan1_15.2.0-4 libuchardet0_0.0.8-2 libudev1_258-1 libunistring5_1.3-2 libuuid1_2.41.2-3 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_1:1.1.5-1 libxdmcp6_1:1.1.5-1 libxext-dev_2:1.3.4-1+b3 libxext6_2:1.3.4-1+b3 libxi6_2:1.8.2-1 libxml2-16_2.14.6+dfsg-0.1 libxml2-dev_2.14.6+dfsg-0.1 libxmu6_2:1.1.3-3+b4 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 libyuv0_0.0.1919.20250919-1 libz3-4_4.13.3-1 libz3-dev_4.13.3-1 libzstd1_1.5.7+dfsg-2 libzzip-0-13t64_0.13.78+dfsg.1-0.2 linux-libc-dev_6.16.11-1 llvm-19_1:19.1.7-7 llvm-19-dev_1:19.1.7-7 llvm-19-linker-tools_1:19.1.7-7 llvm-19-runtime_1:19.1.7-7 llvm-19-tools_1:19.1.7-7 lmodern_2.005-1 login.defs_1:4.18.0-1 m4_1.4.20-2 make_4.4.1-2 man-db_2.13.1-1 mawk_1.3.4.20250131-1 media-types_13.0.0 native-architecture_0.2.6 ncurses-base_6.5+20250216-2 ncurses-bin_6.5+20250216-2 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_1:4.18.0-1 patch_2.8-2 perl_5.40.1-6 perl-base_5.40.1-6 perl-modules-5.40_5.40.1-6 pkgconf_1.8.1-4 pkgconf-bin_1.8.1-4 po-debconf_1.0.21+nmu1 postgresql-client-18_18.0-1 postgresql-client-common_284 postgresql-common_284 postgresql-common-dev_284 postgresql-server-dev-18_18.0-1 postgresql-server-dev-all_284 preview-latex-style_13.2-1.1 procps_2:4.0.4-9 python-babel-localedata_2.17.0-1 python3_3.13.7-1 python3-alabaster_0.7.16-0.1 python3-babel_2.17.0-1 python3-certifi_2025.1.31+ds-1 python3-chardet_5.2.0+dfsg-2 python3-charset-normalizer_3.4.3-1 python3-commonmark_0.9.1-8 python3-dateutil_2.9.0-4 python3-defusedxml_0.7.1-3 python3-dev_3.13.7-1 python3-docutils_0.21.2+dfsg-2 python3-greenlet_3.1.0-1+b2 python3-idna_3.10-1 python3-imagesize_1.4.1-1 python3-iniconfig_1.1.1-2 python3-jinja2_3.1.6-1 python3-linkify-it_2.0.3-1 python3-markdown-it_3.0.0-3 python3-markupsafe_3.0.2-2 python3-mdit-py-plugins_0.5.0-1 python3-mdurl_0.1.2-1 python3-minimal_3.13.7-1 python3-myst-parser_4.0.1-1 python3-numpy_1:2.2.4+ds-1.2 python3-numpy-dev_1:2.2.4+ds-1.2 python3-packaging_25.0-1 python3-pandas_2.3.2+dfsg-2 python3-pandas-lib_2.3.2+dfsg-2 python3-pil_11.3.0-1 python3-pluggy_1.6.0-1 python3-pygments_2.18.0+dfsg-2 python3-pytest_8.4.2-1 python3-pytz_2025.2-4 python3-recommonmark_0.7.1+ds-8 python3-requests_2.32.5+dfsg-1 python3-roman_5.1-1 python3-roman-numerals_3.1.0-2 python3-snowballstemmer_3.0.1-1 python3-sphinx_8.2.3-7 python3-sqlalchemy_2.0.43+ds1-1 python3-typing-extensions_4.15.0-1 python3-uc-micro_1.0.3-1 python3-urllib3_2.5.0-1 python3-yaml_6.0.2-2 python3.13_3.13.7-1 python3.13-dev_3.13.7-1 python3.13-minimal_3.13.7-1 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_8.2.3-7 ssl-cert_1.1.3 sysvinit-utils_3.14-4 t1utils_1.41-4+b1 tar_1.35+dfsg-3.1 tex-common_6.19 tex-gyre_20180621-6 texlive-base_2025.20250927-3 texlive-binaries_2025.20250727.75242+ds-4 texlive-fonts-recommended_2025.20250927-3 texlive-latex-base_2025.20250927-3 texlive-latex-extra_2025.20250927-3 texlive-latex-recommended_2025.20250927-3 texlive-luatex_2025.20250927-3 texlive-pictures_2025.20250927-3 tzdata_2025b-5 ucf_3.0052 util-linux_2.41.2-3 uuid-dev_2.41.2-3 x11-common_1:7.7+25 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_5.8.1-2 zlib1g_1:1.3.dfsg+really1.3.1-1+b1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1+b1 +------------------------------------------------------------------------------+ | Build Wed, 19 Nov 2025 20:13:19 +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: 202503.6-2 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, 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 9c004f5fb07d1f23292e808b34ce54e058227173 49556 rdkit_202503.6-2.debian.tar.xz Checksums-Sha256: 88fa533178ab825e336ad22a6d0b8f1d392f038a99dec8787f25ad27d4a5544a 64217064 rdkit_202503.6.orig.tar.xz 9b7a8a2a158c4f39864e3c67d99c3448efc7196aa549fb5ab3e56d762cf73a1c 49556 rdkit_202503.6-2.debian.tar.xz Files: 93941122f9c12328a05e5489ed103015 64217064 rdkit_202503.6.orig.tar.xz 239c55fcd10a7c43af4b2f148c15e4f2 49556 rdkit_202503.6-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEXEj+YVf0kXlZcIfGTFprqxLSp64FAmjm5F8ACgkQTFprqxLS p64+3hAAsUuu5yxtqApH4BmblAOt8yp7CWmwQRBGUM1uuGMCvQBRuC1MxITSm0Ek ybSBgiXFd1LjU88tqHEW1ytn3BWgXy3M3px3RmzJCtsB5GVXxH9IqANhUd61WvCp 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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 disable_riscv64_timeout_tests.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=4 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=1759960448 USER=sbuild dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -B dpkg-buildpackage: info: source package rdkit dpkg-buildpackage: info: source version 202503.6-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Christoph Berg 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" -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 -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 "3.13.7") 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 "18.0") == Using strict rotor definition -- Found Python3: /usr/bin/python3 (found version "3.13.7") 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 "2.13.3") 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 (2.6s) -- Generating done (1.2s) 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 "18.0") 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. 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-fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/BinaryStringChromosomePolicy.cpp.o -MF CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o.d -o CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o -c /build/reproducible-path/rdkit-202503.6/External/GA/ga/BinaryStringChromosomePolicy.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/utils.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/utils.cpp.o -MF CMakeFiles/RDGeneral.dir/utils.cpp.o.d -o CMakeFiles/RDGeneral.dir/utils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/utils.cpp [ 1%] Building CXX object External/GA/CMakeFiles/ga.dir/util/RandomUtil.cpp.o cd 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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%] 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' [ 1%] Built target rdkitCatch [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /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/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o -MF CMakeFiles/RDGeneral.dir/RDLog.cpp.o.d -o CMakeFiles/RDGeneral.dir/RDLog.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/RDLog.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Building CXX object Code/RDStreams/CMakeFiles/RDStreams.dir/streams.cpp.o cd 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-fPIC -std=gnu++20 -fPIC -MD -MT Code/RDStreams/CMakeFiles/RDStreams.dir/streams.cpp.o -MF CMakeFiles/RDStreams.dir/streams.cpp.o.d -o CMakeFiles/RDStreams.dir/streams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDStreams/streams.cpp [ 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 [ 2%] 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 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary 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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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/ga.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.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/Cluster/Murtagh /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh 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-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/hc.c.o -MF CMakeFiles/hc.dir/hc.c.o.d -o CMakeFiles/hc.dir/hc.c.o -c /build/reproducible-path/rdkit-202503.6/Code/ML/Cluster/Murtagh/hc.c [ 2%] Building C 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 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CMakeFiles/hc.dir/hcdriver.c.o -c /build/reproducible-path/rdkit-202503.6/Code/ML/Cluster/Murtagh/hcdriver.c [ 2%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/hc.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 [ 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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Built target hc [ 2%] Linking CXX shared library ../../lib/libRDKitRDGeneral.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeneral.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/RDGeneral.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDGeneral.so.1 -o ../../lib/libRDKitRDGeneral.so.1.2025.03.6 CMakeFiles/RDGeneral.dir/Invariant.cpp.o CMakeFiles/RDGeneral.dir/types.cpp.o CMakeFiles/RDGeneral.dir/utils.cpp.o CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o CMakeFiles/RDGeneral.dir/RDLog.cpp.o CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o CMakeFiles/RDGeneral.dir/versions.cpp.o -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/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 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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/RDBoost /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDBoost /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake "--color=" 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/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/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build 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 -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_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/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -MF CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o.d -o CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Numerics/EigenSolvers/PowerEigenSolver.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 -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/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 [ 2%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o 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 -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o -MF CMakeFiles/RDBoost.dir/Wrap.cpp.o.d -o CMakeFiles/RDBoost.dir/Wrap.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDBoost/Wrap.cpp [ 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/RDStreams.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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%] 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 -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/SparseBitVect.cpp.o -MF CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o.d -o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/SparseBitVect.cpp make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.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/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/testDict.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.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/testDict.dir/testDict.cpp.o -MF CMakeFiles/testDict.dir/testDict.cpp.o.d -o CMakeFiles/testDict.dir/testDict.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/RDGeneral/testDict.cpp [ 2%] Linking CXX shared library ../../../lib/libRDKitEigenSolvers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_link_script CMakeFiles/EigenSolvers.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/EigenSolvers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitEigenSolvers.so.1 -o ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 CMakeFiles/EigenSolvers.dir/PowerEigenSolver.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/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' [ 2%] Built target EigenSolvers make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.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/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/testRDValue.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.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 [ 3%] 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 -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/ExplicitBitVect.cpp.o -MF CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o.d -o CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/ExplicitBitVect.cpp [ 3%] Linking CXX shared library ../../lib/libRDKitRDBoost.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDBoost.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/RDBoost.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDBoost.so.1 -o ../../lib/libRDKitRDBoost.so.1.2025.03.6 CMakeFiles/RDBoost.dir/Wrap.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 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0 /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../lib/libRDKitRDBoost.so.1 ../../lib/libRDKitRDBoost.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 3%] Built target RDBoost [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.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/Utils.cpp.o -MF CMakeFiles/DataStructs.dir/Utils.cpp.o.d -o CMakeFiles/DataStructs.dir/Utils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/Utils.cpp make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.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 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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/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o -MF CMakeFiles/DataStructs.dir/base64.cpp.o.d -o CMakeFiles/DataStructs.dir/base64.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/base64.cpp [ 3%] 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 [ 3%] Linking CXX executable testConcurrentQueue cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/cmake 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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/DataStructs/CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o -MF CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o.d -o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/DiscreteDistMat.cpp [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.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/DiscreteValueVect.cpp.o -MF 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/build/reproducible-path/rdkit-202503.6/Code/RDBoost/Wrap/RDBase.cpp [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/FPBReader.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 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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 -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 [ 5%] Linking CXX shared library ../../lib/libRDKitDataStructs.so cd 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[ 5%] 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 /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 -Wl,--dependency-file=CMakeFiles/DataStructs.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 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/build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/testMatCalc.cpp [ 7%] Linking CXX shared library ../../lib/libRDKitCatalogs.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Catalogs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Catalogs.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/Catalogs.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitCatalogs.so.1 -o ../../lib/libRDKitCatalogs.so.1.2025.03.6 CMakeFiles/Catalogs.dir/Catalog.cpp.o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o CMakeFiles/Catalogs.dir/CatalogEntry.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/Catalogs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitCatalogs.so.1.2025.03.6 ../../lib/libRDKitCatalogs.so.1 ../../lib/libRDKitCatalogs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Built target Catalogs 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/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 -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 [ 7%] Linking CXX executable testMatCalc cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatCalc.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 -Wl,--dependency-file=CMakeFiles/testMatCalc.dir/link.d CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -o testMatCalc ../../../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' [ 7%] Built target testMatCalc make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.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/SimDivPickers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory 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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/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -MF CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o.d -o CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/DistPicker.cpp [ 7%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.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 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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/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 /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 -Wl,--dependency-file=CMakeFiles/testQuery.dir/link.d CMakeFiles/testQuery.dir/test.cpp.o -o testQuery ../RDGeneral/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' [ 7%] Built target testQuery make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.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/Cluster/Murtagh /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /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 -DClustering_EXPORTS -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/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/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 [ 7%] Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMetricMatrixCalc.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMetricMatrixCalc.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.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' [ 7%] Built target rdMetricMatrixCalc make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] 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 [ 7%] Linking CXX shared library ../../lib/libRDKitSimDivPickers.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimDivPickers.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/SimDivPickers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSimDivPickers.so.1 -o ../../lib/libRDKitSimDivPickers.so.1.2025.03.6 CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o ../../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 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' [ 7%] Built target SimDivPickers make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.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/RDGeometryLib.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.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/point.cpp.o -MF CMakeFiles/RDGeometryLib.dir/point.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/point.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/point.cpp [ 7%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/Clustering.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/Clustering.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/ML/Cluster/Clustering.so CMakeFiles/Clustering.dir/Clustering.cpp.o ../../../../lib/libRDKithc.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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' [ 7%] Built target Clustering make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.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/testDataStructs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Building CXX object Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.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 -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/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 [ 7%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/InfoTheory.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitInfoTheory.so.1 -o ../../../lib/libRDKitInfoTheory.so.1.2025.03.6 CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o ../../../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/ML/InfoTheory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitInfoTheory.so.1.2025.03.6 ../../../lib/libRDKitInfoTheory.so.1 ../../../lib/libRDKitInfoTheory.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Built target InfoTheory make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.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/testFPB.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Building CXX object Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.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 -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 [ 7%] 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 -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/Transform2D.cpp.o -MF CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform2D.cpp [ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.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/Transform3D.cpp.o -MF CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/Transform3D.cpp [ 7%] Building CXX object 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 [ 7%] 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 -Wl,--dependency-file=CMakeFiles/testFPB.dir/link.d CMakeFiles/testFPB.dir/testFPB.cpp.o -o testFPB ../RDGeneral/librdkitCatch.a ../../lib/libRDKitDataStructs.so.1.2025.03.6 /usr/lib/libCatch2.a ../../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' [ 7%] Built target testFPB make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend make[4]: Entering directory 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/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/testMultiFPB.dir/testMultiFPB.cpp.o -MF CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o.d -o CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/testMultiFPB.cpp [ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformRealValueGrid3D.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/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 [ 7%] 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 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/build/reproducible-path/rdkit-202503.6/Code/Geometry/GridUtils.cpp [ 7%] 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 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/RDGeometryLib.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDGeometryLib.so.1 -o ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 CMakeFiles/RDGeometryLib.dir/point.cpp.o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o CMakeFiles/RDGeometryLib.dir/UniformRealValueGrid3D.cpp.o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o ../../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/Geometry && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeometryLib.so.1.2025.03.6 ../../lib/libRDKitRDGeometryLib.so.1 ../../lib/libRDKitRDGeometryLib.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Built target RDGeometryLib make -f Code/DataStructs/CMakeFiles/catchDataStructs.dir/build.make Code/DataStructs/CMakeFiles/catchDataStructs.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/catchDataStructs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/DataStructs/CMakeFiles/catchDataStructs.dir/build.make Code/DataStructs/CMakeFiles/catchDataStructs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 7%] Building CXX object Code/DataStructs/CMakeFiles/catchDataStructs.dir/catch_tests.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 -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/catchDataStructs.dir/catch_tests.cpp.o -MF CMakeFiles/catchDataStructs.dir/catch_tests.cpp.o.d -o CMakeFiles/catchDataStructs.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/catch_tests.cpp [ 7%] 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdBase.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/rdBase.so CMakeFiles/rdBase.dir/RDBase.cpp.o ../../../lib/libRDKitRDBoost.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 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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/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 [ 7%] 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 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-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/DiscreteValueVect.cpp.o -MF CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o.d -o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/DiscreteValueVect.cpp [ 7%] Linking CXX executable testTransforms cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Geometry && 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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' [ 7%] Built target testTransforms 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=" 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 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o -MF CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o.d -o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/SparseIntVect.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 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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/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformRealValueGrid3D.cpp.o -MF CMakeFiles/rdGeometry.dir/UniformRealValueGrid3D.cpp.o.d -o CMakeFiles/rdGeometry.dir/UniformRealValueGrid3D.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/Wrap/UniformRealValueGrid3D.cpp [ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ 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-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 [ 9%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.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 -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/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -MF CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o.d -o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Geometry/Wrap/rdGeometry.cpp [ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.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/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp [ 9%] 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 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdGeometry.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Geometry/rdGeometry.so CMakeFiles/rdGeometry.dir/Point.cpp.o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o CMakeFiles/rdGeometry.dir/UniformRealValueGrid3D.cpp.o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o ../../../lib/libRDKitRDGeometryLib.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' [ 9%] Built target rdGeometry [ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.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 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Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.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 -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_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 [ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.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 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/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/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 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/cDataStructs.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 9%] Built target cDataStructs make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.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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-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/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o -MF CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o.d -o CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp [ 12%] Linking CXX executable testSimDivPickers cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 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CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Data /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f 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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/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o -MF CMakeFiles/cQuantize.dir/cQuantize.cpp.o.d -o CMakeFiles/cQuantize.dir/cQuantize.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ML/Data/cQuantize.cpp [ 13%] 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 make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.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/ChemicalFeatures.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DChemicalFeatures_EXPORTS -DRDKIT_CHEMICALFEATURES_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/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -MF CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o.d -o CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/FreeChemicalFeature.cpp /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdInfoTheory.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 13%] Built target rdInfoTheory make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.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/GraphMol.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.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/Atom.cpp.o -MF CMakeFiles/GraphMol.dir/Atom.cpp.o.d -o CMakeFiles/GraphMol.dir/Atom.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Atom.cpp [ 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSimDivPickers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/SimDivFilters/rdSimDivPickers.so CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o 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/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DAlignment_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_ALIGNMENT_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/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o -MF CMakeFiles/Alignment.dir/AlignPoints.cpp.o.d -o CMakeFiles/Alignment.dir/AlignPoints.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Numerics/Alignment/AlignPoints.cpp [ 13%] Linking CXX shared library ../../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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/ChemicalFeatures.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Built target ChemicalFeatures [ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.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/QueryAtom.cpp.o -MF CMakeFiles/GraphMol.dir/QueryAtom.cpp.o.d -o CMakeFiles/GraphMol.dir/QueryAtom.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryAtom.cpp [ 13%] Linking CXX shared library ../../../lib/libRDKitAlignment.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/Alignment.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/Alignment.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitAlignment.so.1 -o ../../../lib/libRDKitAlignment.so.1.2025.03.6 CMakeFiles/Alignment.dir/AlignPoints.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/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/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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /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/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 [ 13%] 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/cQuantize.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ML/Data/cQuantize.so CMakeFiles/cQuantize.dir/cQuantize.cpp.o ../../../lib/libRDKitInfoTheory.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.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' [ 13%] Built target cQuantize make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /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/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o -MF CMakeFiles/testAlignment.dir/testAlignment.cpp.o.d -o CMakeFiles/testAlignment.dir/testAlignment.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Numerics/Alignment/testAlignment.cpp [ 13%] 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 [ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryBond.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/QueryBond.cpp.o -MF CMakeFiles/GraphMol.dir/QueryBond.cpp.o.d -o CMakeFiles/GraphMol.dir/QueryBond.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryBond.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 -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' [ 13%] Built target testChemicalFeatures 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 13%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment/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 -DrdAlignment_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/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -MF CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o.d -o CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Numerics/Alignment/Wrap/rdAlignment.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 executable testAlignment cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAlignment.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 -Wl,--dependency-file=CMakeFiles/testAlignment.dir/link.d CMakeFiles/testAlignment.dir/testAlignment.cpp.o -o testAlignment ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitAlignment.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' [ 13%] Built target testAlignment [ 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 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/MolOps.cpp.o -MF CMakeFiles/GraphMol.dir/MolOps.cpp.o.d -o CMakeFiles/GraphMol.dir/MolOps.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolOps.cpp [ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.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/FindRings.cpp.o -MF CMakeFiles/GraphMol.dir/FindRings.cpp.o.d -o CMakeFiles/GraphMol.dir/FindRings.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FindRings.cpp [ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.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/ROMol.cpp.o -MF CMakeFiles/GraphMol.dir/ROMol.cpp.o.d -o CMakeFiles/GraphMol.dir/ROMol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ROMol.cpp [ 13%] Linking CXX shared module ../../../../rdkit/Numerics/rdAlignment.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdAlignment.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks 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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/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdAlignment.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Numerics/rdAlignment.so CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o ../../../../lib/libRDKitAlignment.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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' [ 13%] Built target rdAlignment [ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.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/RWMol.cpp.o -MF CMakeFiles/GraphMol.dir/RWMol.cpp.o.d -o CMakeFiles/GraphMol.dir/RWMol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RWMol.cpp /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FindRings.cpp: In function ‘void RDKit::MolOps::findRingFamilies(const RDKit::ROMol&)’: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FindRings.cpp:1298:36: warning: unused parameter ‘mol’ [-Wunused-parameter] 1298 | void findRingFamilies(const ROMol &mol) { | ~~~~~~~~~~~~~^~~ [ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.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/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 [ 14%] 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 [ 14%] Building CXX object 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 -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o -MF CMakeFiles/GraphMol.dir/QueryOps.cpp.o.d -o CMakeFiles/GraphMol.dir/QueryOps.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.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) | ^~~~~~~~~ [ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.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/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 [ 14%] 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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/Canon.cpp.o -MF CMakeFiles/GraphMol.dir/Canon.cpp.o.d -o CMakeFiles/GraphMol.dir/Canon.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Canon.cpp [ 14%] 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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/AtomIterators.cpp.o -MF CMakeFiles/GraphMol.dir/AtomIterators.cpp.o.d -o CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/AtomIterators.cpp /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) { | ~~~~^~~ [ 14%] 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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/BondIterators.cpp.o -MF CMakeFiles/GraphMol.dir/BondIterators.cpp.o.d -o CMakeFiles/GraphMol.dir/BondIterators.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/BondIterators.cpp [ 14%] 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 [ 14%] 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 [ 14%] 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 -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/ConjugHybrid.cpp.o -MF CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o.d -o CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o -c /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 [ 15%] 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 [ 15%] 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 [ 15%] 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 [ 15%] 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 [ 15%] 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 [ 15%] 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 [ 15%] 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 [ 15%] 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 [ 15%] 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 [ 16%] 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 [ 16%] 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 [ 16%] 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 [ 16%] 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 [ 16%] 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 [ 16%] 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 [ 16%] 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 [ 16%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/GraphMol.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 16%] 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 -f Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/depend make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.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=" 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' 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/GenericGroups /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/DependInfo.cmake "--color=" 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/SmilesParse.dir/DependInfo.cmake "--color=" 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/Trajectory.dir/DependInfo.cmake "--color=" 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/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.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]: 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' [ 16%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o [ 16%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o [ 16%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o [ 17%] Building CXX object Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/GenericGroups.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 -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_TRAJECTORY_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 -DTrajectory_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/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o -MF CMakeFiles/Trajectory.dir/Trajectory.cpp.o.d -o CMakeFiles/Trajectory.dir/Trajectory.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Trajectory/Trajectory.cpp cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolTransforms_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLTRANSFORMS_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/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 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/SmilesParse.cpp.o -MF CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmilesParse.cpp 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 [ 17%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/Trajectory.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 17%] Built target Trajectory make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.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 /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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 17%] 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 -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/CIPMol.cpp.o -MF CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o.d -o CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/CIPMol.cpp [ 17%] 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 [ 17%] 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 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. [ 17%] 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 -Wl,--dependency-file=CMakeFiles/MolTransforms.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. [ 17%] Built target MolTransforms 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/tableTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/tableTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/tableTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 17%] Building CXX object Code/GraphMol/CMakeFiles/tableTestsCatch.dir/catch_periodictable.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/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 /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 -Wl,--dependency-file=CMakeFiles/GenericGroups.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 17%] Built target GenericGroups make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.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/Subgraphs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 18%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.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/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 [ 18%] 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 [ 18%] 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 -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' [ 18%] Built target tableTestsCatch [ 18%] 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 [ 18%] 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 [ 19%] 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 [ 19%] 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 -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/SmartsWrite.cpp.o -MF CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o.d -o CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/SmartsWrite.cpp [ 19%] 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 [ 19%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Subgraphs.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/Subgraphs.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubgraphs.so.1 -o ../../../lib/libRDKitSubgraphs.so.1.2025.03.6 CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o CMakeFiles/Subgraphs.dir/SubgraphUtils.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/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' [ 19%] Built target Subgraphs make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.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/PartialCharges /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/GasteigerCharges.cpp [ 19%] 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 [ 20%] 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 [ 20%] 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 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Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -MF CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o.d -o CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/CXSmilesOps.cpp [ 20%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CanonicalizeStereoGroups.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/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 [ 20%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_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/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/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 [ 20%] 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 -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/Configuration.cpp.o -MF CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o.d -o CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/Configuration.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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/PartialCharges.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 [ 20%] 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 [ 20%] 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 [ 20%] 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 -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/AtropisomerBond.cpp.o -MF CMakeFiles/CIPLabeler.dir/configs/AtropisomerBond.cpp.o.d -o CMakeFiles/CIPLabeler.dir/configs/AtropisomerBond.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.cpp [ 20%] 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 [ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1b.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/Rule1b.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp [ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule2.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/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 [ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule3.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/Rule3.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule3.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4a.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/Rule4a.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4b.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/Rule4b.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4c.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/Rule4c.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o 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 -fPIC -MD -MT Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule6.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 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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/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.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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-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 [ 21%] 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 -DRDKIT_SHAPEHELPERS_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 -DShapeHelpers_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/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -MF CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o.d -o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp [ 21%] Linking CXX shared library ../../../lib/libRDKitCIPLabeler.so cd 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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 -Wl,--dependency-file=CMakeFiles/CIPLabeler.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitCIPLabeler.so.1 -o ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o CMakeFiles/CIPLabeler.dir/Mancude.cpp.o CMakeFiles/CIPLabeler.dir/Digraph.cpp.o CMakeFiles/CIPLabeler.dir/Node.cpp.o CMakeFiles/CIPLabeler.dir/Edge.cpp.o CMakeFiles/CIPLabeler.dir/Sort.cpp.o CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o 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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/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o -MF CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o.d -o CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp [ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.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/smarts.tab.cpp.o -MF CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o.d -o CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/smarts.tab.cpp [ 21%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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 -Wl,--dependency-file=CMakeFiles/ShapeHelpers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 ../../../lib/libRDKitShapeHelpers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 21%] Built target ShapeHelpers 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 21%] Building CXX object Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/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 -DrdCIPLabeler_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/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 [ 22%] 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 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. [ 22%] 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 /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolTransforms.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolTransforms.so CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o ../../../../lib/libRDKitMolTransforms.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/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' [ 22%] Built target rdMolTransforms 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=" 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' [ 22%] 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 [ 23%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/MolCatalog.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 23%] Built target MolCatalog 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 23%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.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/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 [ 23%] 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdCIPLabeler.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 ../../../../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' [ 23%] Built target rdCIPLabeler 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 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Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.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/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 [ 23%] 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 [ 23%] 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 [ 23%] 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 [ 23%] 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 [ 23%] 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 -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.yysmiles.cpp.o -MF CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o.d -o CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/lex.yysmiles.cpp [ 23%] 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 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/sln.tab.cpp [ 23%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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[ 23%] Linking CXX shared module ../../../rdkit/Chem/rdqueries.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdqueries.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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 -Wl,--dependency-file=CMakeFiles/SmilesParse.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSmilesParse.so.1 -o ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o CMakeFiles/SmilesParse.dir/CanonicalizeStereoGroups.cpp.o CMakeFiles/SmilesParse.dir/SmilesJSONParsers.cpp.o CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o CMakeFiles/SmilesParse.dir/lex.yysmiles.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/SmilesParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1 ../../../lib/libRDKitSmilesParse.so /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 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-DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/Trajectory.cpp.o -MF CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o.d -o 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-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/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 [ 24%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so cd 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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/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/MolInterchange.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 24%] Built target MolInterchange [ 24%] 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 [ 24%] 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 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/SLNParse.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSLNParse.so.1 -o ../../../lib/libRDKitSLNParse.so.1.2025.03.6 CMakeFiles/SLNParse.dir/SLNParse.cpp.o CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o CMakeFiles/SLNParse.dir/sln.tab.cpp.o CMakeFiles/SLNParse.dir/lex.yysln.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/SLNParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSLNParse.so.1.2025.03.6 ../../../lib/libRDKitSLNParse.so.1 ../../../lib/libRDKitSLNParse.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 24%] Built target SLNParse make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.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/SubstructMatch.dir/DependInfo.cmake "--color=" 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' [ 24%] 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 -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_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 -DSubstructMatch_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/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o -MF CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o.d -o CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructMatch.cpp [ 24%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.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 -DRDKIT_SUBSTRUCTMATCH_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 -DSubstructMatch_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/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -MF CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o.d -o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Substruct/SubstructUtils.cpp [ 25%] 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 [ 25%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemicalFeatures.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdChemicalFeatures.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdChemicalFeatures.so CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../../lib/libRDKitChemicalFeatures.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.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' [ 25%] Built target rdChemicalFeatures 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=" 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' [ 25%] 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 [ 25%] 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 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdtrajectory.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdtrajectory.so CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o ../../../lib/libRDKitTrajectory.so.1.2025.03.6 ../../../lib/libRDKitGraphMol.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.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' [ 25%] Built target rdtrajectory [ 25%] 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 make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.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/graphmolcpTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 25%] Building CXX object Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.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/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 [ 26%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/Optimizer.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitOptimizer.so.1 -o ../../../lib/libRDKitOptimizer.so.1.2025.03.6 CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o ../../../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/Numerics/Optimizer && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../lib/libRDKitOptimizer.so.1 ../../../lib/libRDKitOptimizer.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 26%] Built target Optimizer make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.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/graphmolIterTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.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/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 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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.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/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 [ 26%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/SubstructMatch.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructMatch.so.1 -o ../../../lib/libRDKitSubstructMatch.so.1.2025.03.6 CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o ../../../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/Substruct && /usr/bin/cmake -E 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' [ 26%] Built target SubstructMatch make -f Code/GraphMol/CMakeFiles/queryTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/queryTestsCatch.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/queryTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/queryTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/queryTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/CMakeFiles/queryTestsCatch.dir/catch_queries.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/queryTestsCatch.dir/catch_queries.cpp.o -MF CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o.d -o CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_queries.cpp [ 26%] 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 -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' [ 26%] Built target graphmolcpTest 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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/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 [ 26%] Linking CXX executable queryTestsCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script 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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/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o -MF CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o.d -o CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Fingerprints.cpp [ 27%] 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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -c 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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' [ 27%] Built target molbundleTestsCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.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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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++ -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 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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/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FilterMatchers.cpp [ 27%] 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 -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT 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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' [ 28%] Built target v2smiTestCatch [ 29%] 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 -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/MACCS.cpp.o -MF CMakeFiles/Fingerprints.dir/MACCS.cpp.o.d -o CMakeFiles/Fingerprints.dir/MACCS.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MACCS.cpp [ 29%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK 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Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -MF CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp [ 29%] Linking CXX executable smaTest1 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smaTest1.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 -Wl,--dependency-file=CMakeFiles/smaTest1.dir/link.d CMakeFiles/smaTest1.dir/smatest.cpp.o -o smaTest1 ../../../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' [ 29%] Built target smaTest1 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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/test1.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 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Subgraphs/test1.cpp [ 29%] 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 -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_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/MHFP.cpp.o -MF CMakeFiles/Fingerprints.dir/MHFP.cpp.o.d -o CMakeFiles/Fingerprints.dir/MHFP.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/MHFP.cpp [ 29%] 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 [ 29%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/FilterCatalog.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Built target FilterCatalog [ 29%] 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 [ 29%] 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 [ 29%] Linking CXX executable testSubgraphs1 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs1.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 -Wl,--dependency-file=CMakeFiles/testSubgraphs1.dir/link.d CMakeFiles/testSubgraphs1.dir/test1.cpp.o -o testSubgraphs1 ../../../lib/libRDKitSubgraphs.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' [ 29%] Built target testSubgraphs1 make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.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 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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/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 make -f Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/build.make 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-std=gnu++20 -fPIC -MD -MT Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/FragCatGenerator.cpp [ 29%] 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 [ 29%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/Fingerprints.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFingerprints.so.1 -o ../../../lib/libRDKitFingerprints.so.1.2025.03.6 CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o CMakeFiles/Fingerprints.dir/MACCS.cpp.o CMakeFiles/Fingerprints.dir/MHFP.cpp.o CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o ../../../lib/libRDKitCIPLabeler.so.1.2025.03.6 ../../../lib/libRDKitSubgraphs.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 /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' [ 29%] Built target Fingerprints [ 29%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.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/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 [ 29%] 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 -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/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 make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.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/PartialCharges /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /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/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 make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.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/PartialCharges/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/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 -DrdPartialCharges_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/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o -MF CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o.d -o CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp [ 29%] Linking CXX shared library ../../../lib/libRDKitFragCatalog.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragCatalog.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/FragCatalog.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFragCatalog.so.1 -o ../../../lib/libRDKitFragCatalog.so.1.2025.03.6 CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o CMakeFiles/FragCatalog.dir/FragFPGenerator.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/FragCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFragCatalog.so.1.2025.03.6 ../../../lib/libRDKitFragCatalog.so.1 ../../../lib/libRDKitFragCatalog.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Built target FragCatalog make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.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 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Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/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 -DrdShapeHelpers_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/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 [ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdPartialCharges.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this 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/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' [ 29%] Built target rdPartialCharges [ 29%] 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 [ 29%] 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/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 [ 29%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.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/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 make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake "--color=" 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 -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/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o -MF CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o.d -o CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp [ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdShapeHelpers.so cd 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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/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdShapeHelpers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdShapeHelpers.so CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o ../../../../lib/libRDKitShapeHelpers.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.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' [ 29%] Built target rdShapeHelpers make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.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/ReducedGraphs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.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 -DRDKIT_REDUCEDGRAPHS_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 -DReducedGraphs_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/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 [ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdfiltercatalog.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfiltercatalog.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdfiltercatalog.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdfiltercatalog.so CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o ../../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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' [ 29%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolChemicalFeatures.dir/link.txt --verbose=1 [ 29%] Built target rdfiltercatalog make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/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 -DrdMolInterchange_EXPORTS -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 -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/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o -MF CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o.d -o CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/MolChemicalFeatures.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolChemicalFeatures.so.1 -o ../../../lib/libRDKitMolChemicalFeatures.so.1.2025.03.6 CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o CMakeFiles/MolChemicalFeatures.dir/FeatureParser.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/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' [ 29%] Built target MolChemicalFeatures make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/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 [ 29%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/ReducedGraphs.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 29%] Built target ReducedGraphs make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/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 -DrdSLNParse_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/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 [ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdMolCatalog.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolCatalog.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolCatalog.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 29%] Built target rdMolCatalog make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 29%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_ABBREVIATIONS_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/Abbreviations/CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o -MF CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o.d -o CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/Abbreviations.cpp [ 30%] 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 [ 30%] Linking CXX shared module ../../../../rdkit/Chem/rdMolInterchange.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolInterchange.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSLNParse.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdSLNParse.so CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o ../../../../lib/libRDKitSLNParse.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 /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' [ 30%] Built target rdSLNParse make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.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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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/AlignMolecules.cpp [ 30%] Built target rdMolInterchange [ 30%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_ABBREVIATIONS_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/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 make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.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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-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/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -MF CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o.d -o CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/Numerics/Optimizer/testOptimizer.cpp [ 30%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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 -Wl,--dependency-file=CMakeFiles/Abbreviations.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 30%] Built target Abbreviations make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.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/ForceField.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 30%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.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/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 [ 30%] Linking CXX executable testOptimizer cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/testOptimizer.dir/link.txt --verbose=1 [ 30%] 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 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=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 -Wl,--dependency-file=CMakeFiles/testOptimizer.dir/link.d CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -o testOptimizer ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitOptimizer.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 30%] Built target testOptimizer make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.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/graphmolqueryTest.dir/DependInfo.cmake "--color=" /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 -Wl,--dependency-file=CMakeFiles/MolAlign.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.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' [ 30%] Building CXX object 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 -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -MF CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o.d -o CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/querytest.cpp [ 30%] 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 /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/moliteratorTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory 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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 -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 [ 31%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/AngleConstraint.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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Code/ForceField/CMakeFiles/ForceField.dir/DistanceConstraint.cpp.o -MF CMakeFiles/ForceField.dir/DistanceConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/DistanceConstraint.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/DistanceConstraint.cpp [ 31%] 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 -Wl,--dependency-file=CMakeFiles/moliteratorTestsCatch.dir/link.d CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o -o moliteratorTestsCatch 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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/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o -MF CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o.d -o CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp [ 31%] 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 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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/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 [ 31%] 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 -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/TorsionConstraint.cpp.o -MF CMakeFiles/ForceField.dir/TorsionConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/TorsionConstraint.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/TorsionConstraint.cpp [ 31%] Linking CXX executable graphmolqueryTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolqueryTest.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 -Wl,--dependency-file=CMakeFiles/graphmolqueryTest.dir/link.d CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -o graphmolqueryTest ../../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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 31%] Built target graphmolqueryTest [ 31%] 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 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())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 31%] 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 [ 31%] 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 [ 31%] 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 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Inversion.cpp 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=" 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' [ 31%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.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/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 [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversions.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/Inversions.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Inversions.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Inversions.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/Inversions.cpp [ 32%] 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared 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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/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMHFPFingerprint.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMHFPFingerprint.so CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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' [ 32%] Built target rdMHFPFingerprint 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=" 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' [ 32%] 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++ 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CMakeFiles/testReducedGraphs.dir/test1.cpp.o.d -o CMakeFiles/testReducedGraphs.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs/test1.cpp [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.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/TorsionAngle.cpp.o -MF CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/UFF/TorsionAngle.cpp [ 32%] 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 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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 [ 32%] Linking CXX shared module ../../../../rdkit/Chem/rdFingerprintGenerator.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFingerprintGenerator.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdFingerprintGenerator.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFingerprintGenerator.so CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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' [ 32%] Built target rdFingerprintGenerator [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.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 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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/MMFF/AngleBend.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/AngleBend.cpp [ 32%] 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 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS 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Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.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/ChemicalFeatureUtils.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.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 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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/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o -MF CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o.d -o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/EmbeddedFrag.cpp [ 33%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.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/TorsionAngle.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/TorsionAngle.cpp [ 33%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolChemicalFeatures.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolChemicalFeatures.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolChemicalFeatures.so CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o 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-fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o -MF CMakeFiles/Depictor.dir/DepictUtils.cpp.o.d -o CMakeFiles/Depictor.dir/DepictUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/DepictUtils.cpp [ 35%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.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/Params.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/Params.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/Params.cpp [ 35%] 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 [ 35%] 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdCoordGen.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 35%] Built target rdCoordGen [ 35%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/Depictor.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 ../../../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/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/Depictor && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDepictor.so.1.2025.03.6 ../../../lib/libRDKitDepictor.so.1 ../../../lib/libRDKitDepictor.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 35%] Built target Depictor make -f External/INCHI-API/CMakeFiles/RDInchiLib.dir/build.make External/INCHI-API/CMakeFiles/RDInchiLib.dir/depend make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.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/ChemTransforms.dir/DependInfo.cmake "--color=" 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=" 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/Depictor/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f External/INCHI-API/CMakeFiles/RDInchiLib.dir/build.make External/INCHI-API/CMakeFiles/RDInchiLib.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/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.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/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 36%] Building CXX object External/INCHI-API/CMakeFiles/RDInchiLib.dir/inchi.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/INCHI-API && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDInchiLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDINCHILIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_INCHI_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/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/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 [ 37%] 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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -MF CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o.d -o CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/ChemTransforms.cpp [ 37%] Building CXX object Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/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 -DIN_COORDGEN -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 -DrdDepictor_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/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 [ 37%] 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 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/ForceField.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 37%] Built target ForceField [ 37%] 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 -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/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o -MF CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o.d -o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/MolFragmenter.cpp [ 37%] 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. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/RDInchiLib.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDInchiLib.so.1 -o ../../lib/libRDKitRDInchiLib.so.1.2025.03.6 CMakeFiles/RDInchiLib.dir/inchi.cpp.o /usr/lib/aarch64-linux-gnu/libinchi.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/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/External/INCHI-API && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDInchiLib.so.1.2025.03.6 ../../lib/libRDKitRDInchiLib.so.1 ../../lib/libRDKitRDInchiLib.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 37%] Built target RDInchiLib [ 37%] 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 -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_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/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenterJSONParser.cpp.o -MF CMakeFiles/ChemTransforms.dir/MolFragmenterJSONParser.cpp.o.d -o CMakeFiles/ChemTransforms.dir/MolFragmenterJSONParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemTransforms/MolFragmenterJSONParser.cpp [ 37%] 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 CMakeFiles/rdDepictor.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdDepictor.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDepictor.so CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o ../../../../lib/libRDKitDepictor.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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 /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 rdDepictor make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend make[4]: Entering directory 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/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/hashfunctions.cpp.o -MF CMakeFiles/MolHash.dir/hashfunctions.cpp.o.d -o CMakeFiles/MolHash.dir/hashfunctions.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/hashfunctions.cpp [ 37%] 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 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=" [ 37%] 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 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' [ 38%] 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 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/ChemTransforms.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1 ../../../lib/libRDKitChemTransforms.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 38%] Built target ChemTransforms 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 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.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 -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 make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.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/FileParsers.dir/DependInfo.cmake "--color=" 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' [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CDXMLParser.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/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 [ 38%] Linking CXX shared 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/MolHash.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 38%] Built target MolHash [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.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 [ 38%] 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 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/Builder.cpp [ 38%] 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. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdinchi.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdinchi.so CMakeFiles/rdinchi.dir/pyInchi.cpp.o ../../../lib/libRDKitRDInchiLib.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libinchi.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 /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' [ 38%] Built target rdinchi make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.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/MolHash/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 38%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.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/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 [ 38%] 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 [ 38%] 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/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 [ 38%] 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 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolHash.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolHash.so CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o ../../../../lib/libRDKitMolHash.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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 /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' [ 38%] Built target rdMolHash [ 39%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o cd 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-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 [ 39%] 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 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/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 /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); | ^ [ 39%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o cd 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-fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.cpp [ 39%] 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 [ 39%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o cd 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-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 [ 39%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleContribs.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 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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/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 [ 39%] 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 [ 39%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so cd 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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 -Wl,--dependency-file=CMakeFiles/ForceFieldHelpers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 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../../../lib/libRDKitForceFieldHelpers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 39%] Built target ForceFieldHelpers [ 39%] 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++ -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 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SDMolSupplier.cpp [ 39%] 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 -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/SDWriter.cpp.o -MF 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 [ 39%] 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 [ 39%] 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 -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/SmilesWriter.cpp.o -MF CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/SmilesWriter.cpp [ 40%] 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 [ 40%] 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 && 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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 [ 40%] 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 make -f Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/build.make Code/ForceField/CMakeFiles/ForceFieldsCatch.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 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../../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' [ 41%] Built target ForceFieldsCatch 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/DistGeom /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu 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Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.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/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 [ 42%] 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 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=" 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' [ 42%] 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 [ 42%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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 -Wl,--dependency-file=CMakeFiles/DistGeometry.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeometry.so.1 -o ../../lib/libRDKitDistGeometry.so.1.2025.03.6 CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o CMakeFiles/DistGeometry.dir/DistViolationContribs.cpp.o CMakeFiles/DistGeometry.dir/ChiralViolationContribs.cpp.o ../../lib/libRDKitEigenSolvers.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 ../../lib/libRDKitTrajectory.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/DistGeom && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDistGeometry.so.1.2025.03.6 ../../lib/libRDKitDistGeometry.so.1 ../../lib/libRDKitDistGeometry.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 42%] Built target DistGeometry make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 42%] Building CXX object Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/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 -DrdForceFieldHelpers_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/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -MF CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o.d -o CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp [ 43%] 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 [ 44%] 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdForceFieldHelpers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdForceFieldHelpers.so CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o ../../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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' [ 44%] Built target rdForceFieldHelpers make -f Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.dir/build.make Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.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/MolInteractionFields /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.dir/build.make Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 44%] Building CXX object Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.dir/MIFDescriptors.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolInteractionFields_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERACTIONFIELDS_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/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 [ 44%] 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 [ 44%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceField.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdForceField.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ForceField/rdForceField.so CMakeFiles/rdForceField.dir/ForceField.cpp.o ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.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' [ 44%] Built target rdForceField make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.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/DistGeomHelpers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 44%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_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/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 [ 44%] 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 [ 44%] 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 [ 44%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/MolInteractionFields.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolInteractionFields.so.1 -o ../../../lib/libRDKitMolInteractionFields.so.1.2025.03.6 CMakeFiles/MolInteractionFields.dir/MIFDescriptors.cpp.o ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../lib/libRDKitForceField.so.1.2025.03.6 ../../../lib/libRDKitSmilesParse.so.1.2025.03.6 ../../../lib/libRDKitOptimizer.so.1.2025.03.6 ../../../lib/libRDKitTrajectory.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/MolInteractionFields && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolInteractionFields.so.1.2025.03.6 ../../../lib/libRDKitMolInteractionFields.so.1 ../../../lib/libRDKitMolInteractionFields.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 44%] Built target MolInteractionFields [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o cd 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-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 [ 44%] 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 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-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 [ 44%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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/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' [ 44%] Built target DistGeomHelpers make -f Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.dir/build.make Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.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/MolInteractionFields/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.dir/build.make Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 44%] Building CXX object Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.dir/rdMIF.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/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 -DrdMIF_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/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 [ 44%] 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/DistGeom.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/DistanceGeometry/DistGeom.so CMakeFiles/DistGeom.dir/DistGeom.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.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 ../../../lib/libRDKitTrajectory.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' [ 44%] Built target DistGeom [ 44%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/FileParsers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 44%] 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 -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.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=" 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/UFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/UFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake "--color=" 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/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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make 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/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 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 [ 45%] Building CXX object Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o 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 -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/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -MF CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o.d -o CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/testMMFFForceField.cpp [ 45%] 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/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMIF.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 45%] Built target rdMIF 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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' 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' [ 45%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.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 [ 45%] Linking CXX executable testUFFForceField cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceField.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 -Wl,--dependency-file=CMakeFiles/testUFFForceField.dir/link.d CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -o testUFFForceField ../../../lib/libRDKitForceFieldHelpers.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.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/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/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 -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' [ 45%] Built target testUFFForceField 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=" 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' [ 45%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/testChirality.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/graphmoltestChirality.dir/testChirality.cpp.o -MF CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o.d -o CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/testChirality.cpp [ 45%] Linking CXX executable testCoordGen cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/External/CoordGen && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoordGen.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 -Wl,--dependency-file=CMakeFiles/testCoordGen.dir/link.d CMakeFiles/testCoordGen.dir/test.cpp.o -o testCoordGen /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../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 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/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=" make[4]: Leaving 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 make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 46%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/testPickler.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/graphmoltestPickler.dir/testPickler.cpp.o -MF CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o.d -o CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/testPickler.cpp [ 46%] Linking CXX executable testMMFFForceField cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ForceField/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceField.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 -Wl,--dependency-file=CMakeFiles/testMMFFForceField.dir/link.d CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -o testMMFFForceField ../../../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 ../../../lib/libRDKitTrajectory.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/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.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/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 -ldl /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' [ 46%] Built target testMMFFForceField make -f 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directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 46%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.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/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -MF CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o.d -o CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/testPicklerGlobalSettings.cpp [ 46%] Linking CXX executable graphmoltestPicklerGlobalSetting cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPicklerGlobalSetting.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/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' [ 46%] Built target graphmoltestPicklerGlobalSetting make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.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/hanoiTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 46%] Building CXX object Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.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/hanoiTest.dir/hanoitest.cpp.o -MF CMakeFiles/hanoiTest.dir/hanoitest.cpp.o.d -o CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/hanoitest.cpp [ 46%] 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 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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' [ 46%] Built target graphmoltestPickler 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 /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/resMolSupplierTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 46%] Building CXX object Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.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/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -MF CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o.d -o CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/resMolSupplierTest.cpp [ 46%] 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 -Werror=format-security -mbranch-protection=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 -Wl,--dependency-file=CMakeFiles/hanoiTest.dir/link.d CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -o hanoiTest ../../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' [ 46%] Built target hanoiTest make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.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/molBundleTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 46%] Building CXX object Code/GraphMol/CMakeFiles/molBundleTest.dir/testMolBundle.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/molBundleTest.dir/testMolBundle.cpp.o -MF CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o.d -o CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/testMolBundle.cpp [ 46%] Linking CXX executable resMolSupplierTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/resMolSupplierTest.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 -Wl,--dependency-file=CMakeFiles/resMolSupplierTest.dir/link.d CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -o resMolSupplierTest ../../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' [ 46%] Built target resMolSupplierTest make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.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/testSGroup.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 46%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.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/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 [ 46%] Linking CXX executable graphmoltestChirality cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestChirality.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 -Wl,--dependency-file=CMakeFiles/graphmoltestChirality.dir/link.d CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -o graphmoltestChirality ../../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 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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/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 [ 47%] 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 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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 -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 testSGroup cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && 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Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_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 -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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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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 [ 50%] 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 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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' [ 50%] Built target graphmolMolOpsTest make -f Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/pickleTestsCatch.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/pickleTestsCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 50%] Building CXX object Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/catch_pickles.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/pickleTestsCatch.dir/catch_pickles.cpp.o -MF CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o.d -o CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/catch_pickles.cpp [ 50%] Linking CXX executable canonTestsCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/canonTestsCatch.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 -Wl,--dependency-file=CMakeFiles/canonTestsCatch.dir/link.d CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o -o canonTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitCIPLabeler.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 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 50%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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 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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/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionWriter.cpp [ 50%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionDepict.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 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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/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp /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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../../../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' [ 50%] Built target smiTest1 [ 50%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionUtils.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/ReactionUtils.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/ReactionUtils.cpp [ 51%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.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/MoleculeParser.cpp.o -MF CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/MoleculeParser.cpp [ 51%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.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 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/catch_tests.cpp make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.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/fileParsersTest1.dir/DependInfo.cmake "--color=" 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/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o -MF CMakeFiles/fileParsersTest1.dir/test1.cpp.o.d -o CMakeFiles/fileParsersTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/test1.cpp [ 53%] Linking CXX executable testDepictor cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDepictor.dir/link.txt --verbose=1 [ 53%] 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 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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++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=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 -Wl,--dependency-file=CMakeFiles/testDepictor.dir/link.d CMakeFiles/testDepictor.dir/testDepictor.cpp.o -o testDepictor ../../../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 /usr/lib/aarch64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 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/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/DependInfo.cmake "--color=" 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' [ 53%] 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 [ 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 -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/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=" 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' [ 53%] 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 [ 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=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 -Wl,--dependency-file=CMakeFiles/testAtropisomers.dir/link.d CMakeFiles/testAtropisomers.dir/testAtropisomers.cpp.o -o testAtropisomers ../../../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/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 testAtropisomers 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=" 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' [ 54%] 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 [ 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 -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/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=" 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' [ 54%] 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 [ 54%] Linking CXX executable depictorCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/depictorCatch.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 -Wl,--dependency-file=CMakeFiles/depictorCatch.dir/link.d CMakeFiles/depictorCatch.dir/catch_tests.cpp.o -o depictorCatch ../../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' [ 54%] Built target depictorCatch 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=" 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' [ 54%] 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 [ 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 -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/testMultithreadedMolSupplier.dir/link.d CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o -o testMultithreadedMolSupplier ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.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 /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/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 -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/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.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/testTplParser.dir/DependInfo.cmake "--color=" 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' [ 54%] 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 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 /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 -Wl,--dependency-file=CMakeFiles/testMolSupplier.dir/link.d CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -o testMolSupplier 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Built target testMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.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/testMol2ToMol.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build make[4]: Entering directory '/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 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 -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/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 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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/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 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 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/testMol2ToMol.dir/link.d CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -o testMol2ToMol ../../../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 testMol2ToMol make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.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/testExtendedStereoParsing.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build make[4]: Entering directory '/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 testSequence cd /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 -Wl,--dependency-file=CMakeFiles/testSequence.dir/link.d CMakeFiles/testSequence.dir/testSequence.cpp.o -o testSequence ../../../lib/libRDKitFileParsers.so.1.2025.03.6 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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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/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/fileParsersCatchTest.dir/file_parsers_catch.cpp.o -MF CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o.d -o CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/file_parsers_catch.cpp [ 54%] Linking CXX executable 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 -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 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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/macromolsCatchTest.dir/DependInfo.cmake "--color=" 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%] 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 -Wl,--dependency-file=CMakeFiles/testExtendedStereoParsing.dir/link.d CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -o testExtendedStereoParsing ../../../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 testExtendedStereoParsing 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=" 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 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 -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' [ 54%] Built target macromolsCatchTest 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=" 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 -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/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o -MF CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o.d -o CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FileParsers/XYZFileParserCatchTest.cpp [ 54%] Linking CXX executable fileParsersTest1 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersTest1.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 -Wl,--dependency-file=CMakeFiles/fileParsersTest1.dir/link.d CMakeFiles/fileParsersTest1.dir/test1.cpp.o -o fileParsersTest1 ../../../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/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' [ 54%] Built target fileParsersTest1 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 -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/cdxmlParserCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_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/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 [ 54%] 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 [ 54%] 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 -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' [ 54%] Built target testPropertyLists 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=" 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' [ 54%] 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 /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 -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' [ 54%] Built target XYZFileParserCatchTest 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=" 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 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 -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/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=" 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 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 -Wl,--dependency-file=CMakeFiles/cdxmlParserCatchTest.dir/link.d CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o -o cdxmlParserCatchTest ../../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 cdxmlParserCatchTest 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=" 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 -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=" 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 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 -Wl,--dependency-file=CMakeFiles/v2FileParsersCatchTest.dir/link.d CMakeFiles/v2FileParsersCatchTest.dir/v2_file_parsers_catch.cpp.o -o v2FileParsersCatchTest ../../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 v2FileParsersCatchTest 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=" 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 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 -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 ../../../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 v2MolSuppliers 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=" 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 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 -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/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/substructTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/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 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 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-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 fileParsersCatchTest cd 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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 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 [ 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 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-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 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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' [ 55%] Linking CXX executable substructTestCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructTestCatch.dir/link.txt --verbose=1 [ 55%] Built target testReactionFingerprints 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 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Pipeline.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 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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 -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 make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.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/FilterCatalog 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-DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/FilterCatalog/CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -MF CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o.d -o CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/filtercatalogtest.cpp [ 56%] Linking CXX executable rxnTestCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/rxnTestCatch.dir/link.txt --verbose=1 [ 56%] Building CXX object 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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong 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../../../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' [ 56%] Built target rxnTestCatch make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.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/FragCatalog /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 56%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.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 -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/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o -MF CMakeFiles/testFragCatalog.dir/test1.cpp.o.d -o CMakeFiles/testFragCatalog.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/test1.cpp [ 56%] Linking CXX 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 -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 ../../../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' [ 56%] Built target filterCatalogTest make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.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/FragCatalog/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap 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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 -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/rdfragcatalog.cpp.o -MF CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.cpp [ 56%] 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 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/testFragCatalog.dir/link.d CMakeFiles/testFragCatalog.dir/test1.cpp.o -o testFragCatalog ../../../lib/libRDKitFragCatalog.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 56%] Built target testFragCatalog [ 56%] 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 [ 56%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o cd 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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/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 [ 56%] 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 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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/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o -MF CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o.d -o CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp [ 56%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.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/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 [ 56%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.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/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 [ 56%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.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/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 [ 56%] 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdfragcatalog.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 ../../../../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 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so /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' [ 56%] Built target rdfragcatalog [ 56%] 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 [ 56%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o cd 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‘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) { | ^ make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.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 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-fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/FragmentCatalogUtils.cpp.o -MF CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o.d -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp [ 57%] 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 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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 -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 testMHFPFingerprint make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.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/testFingerprintGenerators.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 57%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.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 -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/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 [ 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 CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o -c 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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 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/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 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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 [ 57%] 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 [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.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/AcidBaseCatalogUtils.cpp.o -MF CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o.d -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.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/TransformCatalog/TransformCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o.d -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.cpp [ 58%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.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/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 [ 58%] 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 [ 58%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.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 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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' [ 58%] Built target testFingerprintGenerators [ 58%] 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 -DRDK_USE_BOOST_SERIALIZATION 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../../../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' [ 58%] Built target testFingerprints [ 58%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.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/TransformCatalog/TransformCatalogUtils.cpp.o -MF CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o.d -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.cpp [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.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 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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/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 [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.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/TautomerCatalog/TautomerCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.cpp [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.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/Property.cpp.o -MF CMakeFiles/Descriptors.dir/Property.cpp.o.d -o CMakeFiles/Descriptors.dir/Property.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Property.cpp [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o cd 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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/Descriptors/CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o -MF CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o.d -o CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/USRDescriptor.cpp 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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/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/MolStandardize && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 ../../../lib/libRDKitMolStandardize.so.1 ../../../lib/libRDKitMolStandardize.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 59%] Built target MolStandardize make -f Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.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 -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o -MF CMakeFiles/testMolTransforms.dir/test1.cpp.o.d -o CMakeFiles/testMolTransforms.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolTransforms/test1.cpp [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AtomFeat.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 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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/RDF.cpp.o -MF CMakeFiles/Descriptors.dir/RDF.cpp.o.d -o CMakeFiles/Descriptors.dir/RDF.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/RDF.cpp [ 61%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MORSE.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 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-o CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp [ 61%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/GETAWAY.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/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 [ 61%] 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 -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 ../../../../lib/libRDKitTrajectory.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/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.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/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 -ldl /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' [ 61%] Built target testMMFFForceFieldHelpersMultiThread make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.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/CrystalFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 61%] Building CXX object Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF && /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/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -MF CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o.d -o CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalFF.cpp [ 61%] Linking CXX executable testMMFFForceFieldHelpers cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceFieldHelpers.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 -Wl,--dependency-file=CMakeFiles/testMMFFForceFieldHelpers.dir/link.d CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -o testMMFFForceFieldHelpers ../../../../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 ../../../../lib/libRDKitTrajectory.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/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.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/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 -ldl /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' [ 61%] Built target testMMFFForceFieldHelpers make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.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/DistGeomHelpers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 61%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /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/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -MF CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o.d -o CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp [ 61%] Linking CXX executable testCrystalForceField cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCrystalForceField.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 -Wl,--dependency-file=CMakeFiles/testCrystalForceField.dir/link.d CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -o testCrystalForceField ../../../../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 ../../../../lib/libRDKitTrajectory.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/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.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/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 -ldl /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' [ 61%] Built target testCrystalForceField make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.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/DistGeomHelpers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 61%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /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/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 testUFFForceFieldHelpers cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceFieldHelpers.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 -Wl,--dependency-file=CMakeFiles/testUFFForceFieldHelpers.dir/link.d CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -o testUFFForceFieldHelpers ../../../../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 ../../../../lib/libRDKitTrajectory.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/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.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/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 -ldl /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 testUFFForceFieldHelpers make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.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/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 62%] Building CXX object Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o cd 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distGeomHelpersCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/distGeomHelpersCatch.dir/link.txt --verbose=1 [ 63%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDistGeom.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 -Wl,--dependency-file=CMakeFiles/distGeomHelpersCatch.dir/link.d CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o -o distGeomHelpersCatch ../../RDGeneral/librdkitCatch.a 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/usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0 -ldl /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' [ 63%] Built target distGeomHelpersCatch /usr/lib/aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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[ 63%] 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 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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' [ 63%] Built target testDistGeomHelpers 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 /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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory 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Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/testFeatures.cpp.o -MF CMakeFiles/testFeatures.dir/testFeatures.cpp.o.d -o CMakeFiles/testFeatures.dir/testFeatures.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp [ 64%] 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 /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 -Wl,--dependency-file=CMakeFiles/testMolAlign.dir/link.d CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -o testMolAlign 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-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/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -MF CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o.d -o CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/testShapeHelpers.cpp [ 64%] Linking CXX executable molAlignCatchTest cd 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../../../lib/libRDKitEigenSolvers.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/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' [ 64%] Built target testShapeHelpers make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.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/FMCS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 64%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/FMCS.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 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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 -Wl,--dependency-file=CMakeFiles/Descriptors.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 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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/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/catch_tests.cpp [ 65%] 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 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/testMolCatalog.dir/link.d CMakeFiles/testMolCatalog.dir/test1.cpp.o -o testMolCatalog ../../../lib/libRDKitMolCatalog.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.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/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 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/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/MMPA.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 66%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.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 -DMMPA_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MMPA_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/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) | ^~~~~~~~~ [ 67%] 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 [ 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/MMPA.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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/FMCS/CMakeFiles/FMCS.dir/TargetMatch.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/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 [ 67%] 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 [ 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 CMakeFiles/molHashCatchTest.dir/link.txt --verbose=1 [ 67%] 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 /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 -Wl,--dependency-file=CMakeFiles/molHashCatchTest.dir/link.d CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -o molHashCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitMolHash.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.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/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 /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' [ 67%] Built target molHashCatchTest make -f Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.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/RascalMCES.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 67%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalMCES.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 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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 [ 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 -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/MolDraw2DUtils.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp [ 67%] 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 [ 67%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalCluster.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/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 [ 67%] 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/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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 -Wl,--dependency-file=CMakeFiles/FMCS.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFMCS.so.1 -o ../../../lib/libRDKitFMCS.so.1.2025.03.6 CMakeFiles/FMCS.dir/FMCS.cpp.o CMakeFiles/FMCS.dir/Seed.cpp.o CMakeFiles/FMCS.dir/TargetMatch.cpp.o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o CMakeFiles/FMCS.dir/SubstructMatchCustom.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/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 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 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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/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%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK 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/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=" 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' [ 68%] Building CXX object Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/EnumerateStereoisomers.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/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 [ 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/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 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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/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 [ 68%] 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 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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 [ 68%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawAnnotation.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/DrawAnnotation.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawAnnotation.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawAnnotation.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawAnnotation.cpp [ 68%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o cd 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-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 [ 69%] 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 [ 69%] 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/lib/aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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[ 69%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMol.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/DrawMol.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawMol.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawMol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMol.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 -Wl,--dependency-file=CMakeFiles/EnumerateStereoisomers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 69%] Built target EnumerateStereoisomers [ 69%] 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 -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/DrawMolMCH.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/DrawMolMCH.cpp [ 70%] 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 [ 70%] 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 [ 70%] 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 [ 70%] 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/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 --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/RascalMCES.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRascalMCES.so.1 -o ../../../lib/libRDKitRascalMCES.so.1.2025.03.6 CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o CMakeFiles/RascalMCES.dir/RascalResult.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/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 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' [ 70%] Built target RascalMCES 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=" 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 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=" 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 -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/Trajectory/CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -MF CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o.d -o CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Trajectory/trajectoryTest.cpp [ 70%] 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/Deprotect.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 70%] Built target Deprotect 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=" 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' [ 70%] 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 [ 70%] 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 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/MolEnumerator.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 70%] Built target MolEnumerator 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=" 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' [ 70%] 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++ -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/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/molInterchangeTest1.dir/test1.cpp.o -MF CMakeFiles/molInterchangeTest1.dir/test1.cpp.o.d -o CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/test1.cpp [ 70%] 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 [ 70%] Linking CXX executable trajectoryTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/trajectoryTest.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 -Wl,--dependency-file=CMakeFiles/trajectoryTest.dir/link.d CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -o trajectoryTest ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitForceFieldHelpers.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/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 ../../../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' [ 70%] Built target trajectoryTest 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 /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/molInterchangeCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 70%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.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 -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 CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o.d -o CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/molinterchange_catch.cpp [ 70%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.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/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%] Linking CXX shared library ../../../lib/libRDKitDetermineBonds.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds && /usr/bin/cmake -E cmake_link_script CMakeFiles/DetermineBonds.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/DetermineBonds.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDetermineBonds.so.1 -o ../../../lib/libRDKitDetermineBonds.so.1.2025.03.6 CMakeFiles/DetermineBonds.dir/DetermineBonds.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/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 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' [ 70%] Built target DetermineBonds 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=" 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[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' [ 70%] 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 [ 70%] 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 -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' [ 70%] Built target molInterchangeTest1 [ 70%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.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 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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 [ 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/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ 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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/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 [ 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 [ 70%] 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 -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 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molInterchangeCatchTest [ 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 [ 71%] 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 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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%] 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++ 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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/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 [ 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 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/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o -MF CMakeFiles/molStandardizeTest.dir/test1.cpp.o.d -o CMakeFiles/molStandardizeTest.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/test1.cpp [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.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 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-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 /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/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 [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ 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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/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/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=" 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' [ 71%] 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 /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/testNormalize.cpp [ 71%] 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/lib/aarch64-linux-gnu/libfreetype.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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 -Wl,--dependency-file=CMakeFiles/MolDraw2D.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolDraw2D.so.1 -o ../../../lib/libRDKitMolDraw2D.so.1.2025.03.6 CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o CMakeFiles/MolDraw2D.dir/DrawAnnotation.cpp.o CMakeFiles/MolDraw2D.dir/DrawMol.cpp.o CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o 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/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' [ 71%] Built target MolDraw2D 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=" 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' [ 71%] 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 [ 71%] 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 -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 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Built target molStandardizeTest 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=" 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/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 [ 71%] 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 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../../../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' [ 71%] Built target molNormalizeTest 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/testTautomer.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/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 [ 71%] Linking CXX shared module ../../../rdkit/Chem/rdmolops.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolops.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdmolops.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolops.so CMakeFiles/rdmolops.dir/rdmolops.cpp.o CMakeFiles/rdmolops.dir/MolOps.cpp.o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o ../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../lib/libRDKitChemTransforms.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../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/libRDKitFilterCatalog.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/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' [ 71%] Built target rdmolops 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 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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 -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/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 [ 71%] 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 [ 71%] Linking CXX executable molValidateTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molValidateTest.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 -Wl,--dependency-file=CMakeFiles/molChargeTest.dir/link.d CMakeFiles/molChargeTest.dir/testCharge.cpp.o -o molChargeTest ../../../lib/libRDKitMolStandardize.so.1.2025.03.6 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-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 /usr/bin/c++ -g -O2 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 71%] 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 -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/molStandardizeCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/catch_tests.cpp [ 71%] 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 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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 /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 molStandardizeSmallTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.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/molStandardizePipelineTest.dir/DependInfo.cmake "--color=" 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' [ 71%] 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 [ 72%] Linking CXX executable molFragmentTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molFragmentTest.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 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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/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 [ 73%] 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 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-DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SCAFFOLDNETWORK_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 -DScaffoldNetwork_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/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o -MF CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o.d -o CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.cpp [ 73%] 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 [ 73%] 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 -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 -Wl,--dependency-file=CMakeFiles/molStandardizePipelineTest.dir/link.d CMakeFiles/molStandardizePipelineTest.dir/testPipeline.cpp.o -o molStandardizePipelineTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolStandardize.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/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' [ 73%] Built target molStandardizePipelineTest 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 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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/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 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 [ 76%] 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++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=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 -Wl,--dependency-file=CMakeFiles/molStandardizeCatchTest.dir/link.d CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -o molStandardizeCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolStandardize.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/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' [ 76%] Built target molStandardizeCatchTest 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=" 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' [ 76%] 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 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/ScaffoldNetwork.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 ../../../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 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitScaffoldNetwork.so.1.2025.03.6 ../../../lib/libRDKitScaffoldNetwork.so.1 ../../../lib/libRDKitScaffoldNetwork.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 76%] Built target ScaffoldNetwork make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 76%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /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/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 [ 76%] 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. [ 76%] 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 /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolEnumerator.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolEnumerator.so CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o ../../../../lib/libRDKitMolEnumerator.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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/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' [ 76%] Built target rdMolEnumerator make -f Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/build.make 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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/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 [ 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 /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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-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/Normalize.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp [ 78%] Linking CXX shared library ../../../lib/libRDKitTautomerQuery.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery && 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../../../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 cd 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/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 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../../../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' [ 78%] Built target testDescriptors make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.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 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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 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/testATF.cpp.o -MF CMakeFiles/testATF.dir/testATF.cpp.o.d -o CMakeFiles/testATF.dir/testATF.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/testATF.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); | ^~~~~~~~~~~~~~~~~~~~ [ 78%] Linking CXX shared library ../../../lib/libRDKitMarvinParser.so 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 /usr/lib/aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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 -Wl,--dependency-file=CMakeFiles/MarvinParser.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMarvinParser.so.1 -o ../../../lib/libRDKitMarvinParser.so.1.2025.03.6 CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o ../../../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 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' [ 78%] Built target MarvinParser 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 78%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/testBCUT.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/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 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_); | ^ 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%] Linking CXX executable testAUTOCORR2D cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR2D.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 -Wl,--dependency-file=CMakeFiles/testAUTOCORR2D.dir/link.d CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -o testAUTOCORR2D ../../../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' [ 78%] Built target testAUTOCORR2D 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=" make[4]: Leaving 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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/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 [ 78%] Linking CXX executable testATF cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testATF.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 -Wl,--dependency-file=CMakeFiles/testATF.dir/link.d CMakeFiles/testATF.dir/testATF.cpp.o -o testATF ../../../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 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Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/testCoulombMat.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 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Building CXX object Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/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 -DrdMolDescriptors_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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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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DO3AAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_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/MolAlign/CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o -MF CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o.d -o CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/O3AAlignMolecules.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 -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/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.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/moldraw2DTest1.dir/DependInfo.cmake "--color=" 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%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/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/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 /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) { | ^ 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) | ^~~~~~~~~ [ 80%] 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 -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' [ 80%] Built target descriptorsTestCatch make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.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/moldraw2DTestCatch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.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/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 [ 80%] 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/O3AAlign.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 ../../../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/libRDKitO3AAlign.so.1.2025.03.6 ../../../lib/libRDKitO3AAlign.so.1 ../../../lib/libRDKitO3AAlign.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 80%] Built target O3AAlign 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=" 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 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/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/rxn_test1.cpp [ 80%] 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 /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 -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' [ 80%] Built target moldraw2DRxnTest1 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=" 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 [ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdMolDescriptors.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDescriptors.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolDescriptors.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolDescriptors.so CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o ../../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../../lib/libRDKitFingerprints.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/libRDKitAlignment.so.1.2025.03.6 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitEigenSolvers.so.1.2025.03.6 ../../../../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/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 /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 rdMolDescriptors 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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.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 -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/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 [ 81%] Linking CXX executable moldraw2DTest1 cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTest1.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 -Wl,--dependency-file=CMakeFiles/moldraw2DTest1.dir/link.d CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -o moldraw2DTest1 ../../../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 moldraw2DTest1 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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/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 -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 [ 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdFMCS.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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/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=" 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 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 -Wl,--dependency-file=CMakeFiles/testFMCS.dir/link.d CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -o testFMCS ../../../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 testFMCS make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.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 /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake "--color=" 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 shared module ../../../../rdkit/Chem/Draw/rdMolDraw2D.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDraw2D.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libcairo.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. /usr/lib/aarch64-linux-gnu/libfreetype.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolDraw2D.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Draw/rdMolDraw2D.so CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o ../../../../lib/libRDKitMolDraw2D.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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 /usr/lib/aarch64-linux-gnu/libcairo.so /usr/lib/aarch64-linux-gnu/libfreetype.so /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 rdMolDraw2D 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=" 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 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../../../../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/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=" [ 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 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/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 /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 -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/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=" 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 shared module ../../../../rdkit/Chem/rdMMPA.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMMPA.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMMPA.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMMPA.so CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o ../../../../lib/libRDKitMMPA.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/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 /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 rdMMPA make -f Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/build.make Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/build.make 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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/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o -MF CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o.d -o CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/Wrap/rdRascalMCES.cpp [ 81%] Linking CXX executable testRascalCluster cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRascalCluster.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 -Wl,--dependency-file=CMakeFiles/testRascalCluster.dir/link.d CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o -o testRascalCluster ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitRascalMCES.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../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/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 /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 testRascalCluster make -f Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/build.make Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.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/GeneralizedSubstruct /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/build.make Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/XQMol.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 -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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 [ 82%] Linking CXX executable moldraw2DTestCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTestCatch.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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/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/testEnumerateStereoisomers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/EnumerateStereoisomers/CMakeFiles/testEnumerateStereoisomers.dir/build.make Code/GraphMol/EnumerateStereoisomers/CMakeFiles/testEnumerateStereoisomers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 83%] Building CXX object Code/GraphMol/EnumerateStereoisomers/CMakeFiles/testEnumerateStereoisomers.dir/catch_tests.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 -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/EnumerateStereoisomers/CMakeFiles/testEnumerateStereoisomers.dir/catch_tests.cpp.o -MF CMakeFiles/testEnumerateStereoisomers.dir/catch_tests.cpp.o.d -o CMakeFiles/testEnumerateStereoisomers.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/catch_tests.cpp [ 83%] 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 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdRascalMCES.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdRascalMCES.so CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o ../../../../lib/libRDKitRascalMCES.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/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 /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' [ 83%] Built target rdRascalMCES [ 83%] 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 -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202503.6=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/TextIO.cpp.o -MF CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o.d -o CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GeneralizedSubstruct/TextIO.cpp make -f Code/GraphMol/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.dir/build.make Code/GraphMol/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.dir/build.make Code/GraphMol/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 83%] Building CXX object Code/GraphMol/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.dir/rdEnumerateStereoisomers.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/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 -DrdEnumerateStereoisomers_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/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.dir/rdEnumerateStereoisomers.cpp.o -MF CMakeFiles/rdEnumerateStereoisomers.dir/rdEnumerateStereoisomers.cpp.o.d -o CMakeFiles/rdEnumerateStereoisomers.dir/rdEnumerateStereoisomers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/Wrap/rdEnumerateStereoisomers.cpp [ 84%] Linking CXX executable testRascalMCES cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRascalMCES.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 -Wl,--dependency-file=CMakeFiles/testRascalMCES.dir/link.d CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o -o testRascalMCES ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitRascalMCES.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../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/libRDKitMolTransforms.so.1.2025.03.6 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/build/reproducible-path/rdkit-202503.6 /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/testCIPLabeler.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 84%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/catch_tests.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/catch_tests.cpp.o -MF CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/catch_tests.cpp [ 84%] Linking CXX executable testEnumerateStereoisomers cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEnumerateStereoisomers.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 -Wl,--dependency-file=CMakeFiles/testEnumerateStereoisomers.dir/link.d 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/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/deprotectTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 84%] Building CXX object Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/deprotectTest.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 -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 -MD -MT Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o -MF CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o.d -o CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/deprotectTest.cpp [ 84%] 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 [ 84%] Linking CXX shared library ../../../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/lib/aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. 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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/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdEnumerateStereoisomers.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdEnumerateStereoisomers.so CMakeFiles/rdEnumerateStereoisomers.dir/rdEnumerateStereoisomers.cpp.o ../../../../lib/libRDKitEnumerateStereoisomers.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/libRDKitCIPLabeler.so.1.2025.03.6 ../../../../lib/libRDKitDistGeomHelpers.so.1.2025.03.6 ../../../../lib/libRDKitMolAlign.so.1.2025.03.6 ../../../../lib/libRDKitMolTransforms.so.1.2025.03.6 ../../../../lib/libRDKitAlignment.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/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' [ 84%] Built target rdEnumerateStereoisomers make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DependInfo.cmake "--color=" /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 -Wl,--dependency-file=CMakeFiles/GeneralizedSubstruct.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 ../../../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 /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/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 ../../../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/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' make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 84%] Building CXX object 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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/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o -MF CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o.d -o CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/Wrap/DeprotectWrap.cpp [ 85%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.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 -DRDKIT_CIPLABELER_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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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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdDeprotect.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDeprotect.so CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o ../../../../lib/libRDKitDeprotect.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../../lib/libRDKitFilterCatalog.so.1.2025.03.6 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/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' [ 86%] Built target rdDeprotect [ 86%] 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 [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.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 -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/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 [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.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 -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/Node.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Node.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Node.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Node.cpp [ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && 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-Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecompData.cpp [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.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 -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/Edge.cpp.o -MF CMakeFiles/testCIPLabeler.dir/Edge.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/Edge.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Edge.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 /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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/build.make Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 86%] Building CXX object 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 [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.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 -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/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 [ 86%] 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 -Wl,--dependency-file=CMakeFiles/determineBondsCatchTest.dir/link.d CMakeFiles/determineBondsCatchTest.dir/catch_tests.cpp.o -o determineBondsCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitDetermineBonds.so.1.2025.03.6 ../../../lib/libRDKitFileParsers.so.1.2025.03.6 ../../../lib/libRDKitDistGeomHelpers.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 /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/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/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/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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 86%] Built target determineBondsCatchTest [ 86%] 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 -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/RGroupData.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupData.cpp [ 86%] 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 [ 86%] 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 [ 86%] 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdDetermineBonds.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDetermineBonds.so CMakeFiles/rdDetermineBonds.dir/rdDetermineBonds.cpp.o ../../../../lib/libRDKitDetermineBonds.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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 /usr/lib/aarch64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so /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' [ 86%] Built target rdDetermineBonds make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.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/rdchem.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 86%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/rdchem.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/rdchem.cpp.o -MF CMakeFiles/rdchem.dir/rdchem.cpp.o.d -o CMakeFiles/rdchem.dir/rdchem.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rdchem.cpp [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.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 -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/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 [ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupUtils.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/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 [ 86%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.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/Table.cpp.o -MF CMakeFiles/rdchem.dir/Table.cpp.o.d -o CMakeFiles/rdchem.dir/Table.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/Table.cpp [ 87%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.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 -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/AtropisomerBond.cpp.o -MF CMakeFiles/testCIPLabeler.dir/configs/AtropisomerBond.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/configs/AtropisomerBond.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.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__")); | ^ [ 87%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.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 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CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp [ 87%] 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 [ 87%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1b.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 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Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp [ 87%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule2.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/rules/Rule2.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/rules/Rule2.cpp [ 87%] 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 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-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 [ 88%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o cd 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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/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o -MF CMakeFiles/rdchem.dir/Conformer.cpp.o.d -o CMakeFiles/rdchem.dir/Conformer.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/Conformer.cpp [ 91%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompJSONParsers.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 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Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompJSONParsers.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecompJSONParsers.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecompJSONParsers.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupDecompJSONParsers.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 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../../../lib/libRDKitRGroupDecomposition.so.1 ../../../lib/libRDKitRGroupDecomposition.so [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeWriter.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/MaeWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/MaeWriter.cpp [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.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/RingInfo.cpp.o -MF CMakeFiles/rdchem.dir/RingInfo.cpp.o.d -o CMakeFiles/rdchem.dir/RingInfo.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/RingInfo.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 91%] Built target RGroupDecomposition [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.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 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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/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. [ 93%] 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 /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdmolfiles.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolfiles.so CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o ../../../lib/libRDKitMarvinParser.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.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/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 -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' [ 93%] Built target rdmolfiles make -f Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/build.make Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.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/GeneralizedSubstruct/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/build.make Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 93%] Building CXX object Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/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 -DrdGeneralizedSubstruct_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/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o -MF CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o.d -o CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GeneralizedSubstruct/Wrap/rdGeneralizedSubstruct.cpp /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdchem.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdchem.so CMakeFiles/rdchem.dir/rdchem.cpp.o CMakeFiles/rdchem.dir/Table.cpp.o CMakeFiles/rdchem.dir/Atom.cpp.o CMakeFiles/rdchem.dir/Bond.cpp.o CMakeFiles/rdchem.dir/Mol.cpp.o CMakeFiles/rdchem.dir/Conformer.cpp.o CMakeFiles/rdchem.dir/RingInfo.cpp.o CMakeFiles/rdchem.dir/EditableMol.cpp.o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o CMakeFiles/rdchem.dir/MolBundle.cpp.o CMakeFiles/rdchem.dir/StereoGroup.cpp.o CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o CMakeFiles/rdchem.dir/Chirality.cpp.o ../../../lib/libRDKitMarvinParser.so.1.2025.03.6 ../../../lib/libRDKitRDBoost.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 ../../../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/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/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/libmaeparser.so.1.3.3 /usr/lib/aarch64-linux-gnu/libz.so /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' [ 93%] Built target rdchem make -f Code/GraphMol/MolProcessing/CMakeFiles/testMolProcessing.dir/build.make Code/GraphMol/MolProcessing/CMakeFiles/testMolProcessing.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/MolProcessing /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/CMakeFiles/testMolProcessing.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolProcessing/CMakeFiles/testMolProcessing.dir/build.make Code/GraphMol/MolProcessing/CMakeFiles/testMolProcessing.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 93%] Building CXX object Code/GraphMol/MolProcessing/CMakeFiles/testMolProcessing.dir/processing_tests.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing && /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/MolProcessing/CMakeFiles/testMolProcessing.dir/processing_tests.cpp.o -MF CMakeFiles/testMolProcessing.dir/processing_tests.cpp.o.d -o CMakeFiles/testMolProcessing.dir/processing_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolProcessing/processing_tests.cpp [ 93%] 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 -Wl,--dependency-file=CMakeFiles/testMolProcessing.dir/link.d CMakeFiles/testMolProcessing.dir/processing_tests.cpp.o -o testMolProcessing ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolProcessing.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../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/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/libRDKitRDStreams.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' [ 93%] Built target testMolProcessing make -f Code/GraphMol/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.dir/build.make Code/GraphMol/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.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/MolProcessing/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.dir/build.make Code/GraphMol/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 93%] Building CXX object 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 /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/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.dir/rdMolProcessing.cpp.o -MF CMakeFiles/rdMolProcessing.dir/rdMolProcessing.cpp.o.d -o CMakeFiles/rdMolProcessing.dir/rdMolProcessing.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolProcessing/Wrap/rdMolProcessing.cpp [ 93%] Linking CXX executable generalizedSubstructCatch cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/generalizedSubstructCatch.dir/link.txt --verbose=1 [ 93%] Linking CXX shared module ../../../../rdkit/Chem/rdGeneralizedSubstruct.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdGeneralizedSubstruct.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 -Wl,--dependency-file=CMakeFiles/generalizedSubstructCatch.dir/link.d CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o -o generalizedSubstructCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../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/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' /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. [ 93%] Built target generalizedSubstructCatch make -f Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build.make Code/PgSQL/rdkit/CMakeFiles/rdkit.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/PgSQL/rdkit /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build.make Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 93%] Building 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 /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdGeneralizedSubstruct.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdGeneralizedSubstruct.so CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o ../../../../lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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/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/libRDKitSubstructMatch.so.1.2025.03.6 ../../../../lib/libRDKitGenericGroups.so.1.2025.03.6 ../../../../lib/libRDKitSmilesParse.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 /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' [ 93%] Built target rdGeneralizedSubstruct make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.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/cxsmilesTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 93%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -MF CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o.d -o CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SmilesParse/cxsmiles_test.cpp [ 93%] Linking CXX shared module ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdScaffoldNetwork.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdScaffoldNetwork.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o ../../../../lib/libRDKitScaffoldNetwork.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' [ 93%] Built target rdScaffoldNetwork make -f Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/build.make Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.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/MarvinParse /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/build.make Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 94%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/testMrvToMol.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 -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/MarvinParse/CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o -MF CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o.d -o CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MarvinParse/testMrvToMol.cpp /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/adapter.cpp: In function ‘void* makeAvalonBFP(CROMol, bool, unsigned int)’: /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/adapter.cpp:1637:38: warning: unused parameter ‘data’ [-Wunused-parameter] 1637 | extern "C" CBfp makeAvalonBFP(CROMol data, bool isQuery, | ~~~~~~~^~~~ /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/adapter.cpp:1637:49: 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) { | ~~~~~~~~~~~~~^~~~~~~~ [ 94%] Linking CXX shared module ../../../../rdkit/Chem/rdMolProcessing.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolProcessing.dir/link.txt --verbose=1 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolProcessing.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolProcessing.so CMakeFiles/rdMolProcessing.dir/rdMolProcessing.cpp.o ../../../../lib/libRDKitMolProcessing.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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/libRDKitRDStreams.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 rdMolProcessing make -f Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.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/GenericGroups /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups 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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/GenericGroups/CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o -MF CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o.d -o CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/GenericGroups/generic_tests.cpp [ 94%] 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 -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/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 [ 94%] 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\" -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/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 [ 94%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/guc.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/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 [ 94%] 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 [ 94%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/mol_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 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-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 [ 94%] 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 -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/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 [ 94%] 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 -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/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 [ 94%] 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 [ 95%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_gin.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 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-Wl,-z,now -Wl,--dependency-file=CMakeFiles/testMrvToMol.dir/link.d CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o -o testMrvToMol ../../../lib/libRDKitMarvinParser.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/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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 95%] Built target testMrvToMol make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 95%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/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 -DrdChemReactions_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/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o -MF CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o.d -o CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp [ 95%] 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 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CMakeFiles/rdkit.dir/bitstring.c.o -c /build/reproducible-path/rdkit-202503.6/Code/PgSQL/rdkit/bitstring.c [ 95%] 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 -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/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 [ 95%] Linking CXX executable testGenericGroups cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGenericGroups.dir/link.txt --verbose=1 [ 95%] 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 /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 -Wl,--dependency-file=CMakeFiles/testGenericGroups.dir/link.d CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o -o testGenericGroups ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMarvinParser.so.1.2025.03.6 /usr/lib/libCatch2.a ../../../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 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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 -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/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 make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.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/TautomerQuery /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery 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95%] Linking CXX shared library librdkit.so cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdkit.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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[ 95%] Linking CXX executable cxsmilesTest cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/cxsmilesTest.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 -Wl,--dependency-file=CMakeFiles/rdkit.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 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../../../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' [ 95%] Built target rdkit make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.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/TautomerQuery/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f 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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/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 make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 95%] Built target cxsmilesTest make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make 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Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /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/MolAlign/CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -MF CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o.d -o CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/testO3AAlign.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) | ^~~~~~~~~ [ 95%] 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 -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 ../../../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' [ 95%] Built target tautomerQueryTestCatch make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.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/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/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 -DrdMolAlign_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/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o -MF CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o.d -o CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp [ 96%] 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdTautomerQuery.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 96%] Built target rdTautomerQuery make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.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/SynthonSpaceSearch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearch_details.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/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 [ 96%] Linking CXX executable testO3AAlign cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testO3AAlign.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 -Wl,--dependency-file=CMakeFiles/testO3AAlign.dir/link.d CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -o testO3AAlign ../../../lib/libRDKitO3AAlign.so.1.2025.03.6 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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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolAlign.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolAlign.so CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o ../../../../lib/libRDKitO3AAlign.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.so.1.2025.03.6 ../../../../lib/libRDKitDescriptors.so.1.2025.03.6 ../../../../lib/libRDKitPartialCharges.so.1.2025.03.6 ../../../../lib/libRDKitFileParsers.so.1.2025.03.6 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/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' [ 97%] Built target rdMolAlign 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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 97%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.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/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 [ 97%] 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 [ 97%] 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 [ 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 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); | ^ 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=" 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' [ 97%] 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 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]); | ^ [ 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 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]); | ^ /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/SubstructLibrary.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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/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=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 97%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.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/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o -MF CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o.d -o CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/testRGroupInternals.cpp [ 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 -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/SynthonSpaceSearcher.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearcher.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearcher.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.cpp [ 97%] Linking CXX 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 /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdChemReactions.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdChemReactions.so CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o ../../../../lib/libRDKitMarvinParser.so.1.2025.03.6 ../../../../lib/libRDKitChemReactions.so.1.2025.03.6 ../../../../lib/libRDKitRDBoost.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/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/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 /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' [ 97%] Built target rdChemReactions make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.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/rgroupCatchTests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 97%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/catch_rgd.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/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 [ 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 -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 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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 -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/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -MF CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o.d -o CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp [ 97%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSubstructureSearcher.cpp.o cd /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ 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-fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSubstructureSearcher.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSubstructureSearcher.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSubstructureSearcher.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSubstructureSearcher.cpp [ 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 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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/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceFingerprintSearcher.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceFingerprintSearcher.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceFingerprintSearcher.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceFingerprintSearcher.cpp [ 97%] 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 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../../../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 testRGroupDecomp make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make 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'/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 97%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -MF CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o.d -o CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/substructLibraryTest.cpp [ 97%] 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/lib/aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary 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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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdRGroupDecomposition.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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' [ 97%] Built target rdRGroupDecomposition make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.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/substructLibraryCatchTest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/catch_tests.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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/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/SynthonSpaceRascalSearcher.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/SynthonSpaceRascalSearcher.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceRascalSearcher.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceRascalSearcher.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceRascalSearcher.cpp [ 98%] Building CXX object 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 -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/SynthonSpaceHitSet.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceHitSet.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceHitSet.cpp.o -c /build/reproducible-path/rdkit-202503.6/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceHitSet.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 [ 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 /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 -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 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=" 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' [ 99%] 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 [ 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 -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 [ 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%] 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 [ 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -Wl,--dependency-file=CMakeFiles/SynthonSpaceSearch.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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/testSynthonSpaceRascalSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/depend 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=" 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=" 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=" 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/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/build 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 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' 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' [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/rdSynthonSpaceSearch.cpp.o [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.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 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/testSynthonSpaceRascalSearch.dir/rascal_search_catch_tests.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 -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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 [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 -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 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/ld: [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 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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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 -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' /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSynthonSpaceSearch.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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 testSynthonSpaceSubstructureSearch [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/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_numpy313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_python313.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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. /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,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSubstructLibrary.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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=" 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 -lChemTransforms: No such file or directory /usr/bin/ld: cannot find -lFileParsers: No such file or directory /usr/bin/ld: cannot find -lSmilesParse: No such file or directory /usr/bin/ld: cannot find -lFingerprints: No such file or directory /usr/bin/ld: cannot find -lSubgraphs: No such file or directory /usr/bin/ld: cannot find -lDescriptors: No such file or directory /usr/bin/ld: cannot find -lPartialCharges: No such file or directory /usr/bin/ld: cannot find -lSubstructMatch: No such file or directory /usr/bin/ld: cannot find -lGraphMol: No such file or directory /usr/bin/ld: cannot find -lEigenSolvers: No such file or directory /usr/bin/ld: cannot find -lDataStructs: No such file or directory /usr/bin/ld: cannot find -lDepictor: No such file or directory /usr/bin/ld: cannot find -lRDGeometryLib: No such file or directory /usr/bin/ld: cannot find -lRDGeneral: No such file or directory /usr/bin/ld: cannot find -lrdkit_base: No such file or directory collect2: error: ld returned 1 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 -Wl,--dependency-file=CMakeFiles/rdkit.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -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. /usr/lib/aarch64-linux-gnu/libcairo.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. /usr/lib/aarch64-linux-gnu/libfreetype.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. /usr/lib/aarch64-linux-gnu/libz.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. /usr/lib/aarch64-linux-gnu/libboost_serialization.so.1.83.0: 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. /usr/lib/aarch64-linux-gnu/libboost_iostreams.so.1.83.0: 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. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.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. /lib/aarch64-linux-gnu/libm.so.6: 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. /lib/aarch64-linux-gnu/libmvec.so.1: 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. /lib/aarch64-linux-gnu/libc.so.6: 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. /lib/ld-linux-aarch64.so.1: 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: 1.9.8 Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... 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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/reproducible-path/rdkit-202503.6/C/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/MolDraw2D.h:233: warning: unbalanced grouping commands ode/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/GraphMol/MolDraw2D/Qt/DrawTextQt.h... P/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 reprocessing /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-path/rdkit-202503.6/Code/GraphMol/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ROMol.h:416: warning: unbalanced grouping commands /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... Preprocessing /build/reproducible-path/rdkit-/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/RGroupDecomposition/RGroupUtils.h:94: warning: no matching file member found for RDKIT_RGROUPDECOMPOSITION_EXPORT std::string RDKit::toJSON(const std::map &rgr, const std::string &prefix="") Possible candidates: 'RDKIT_RGROUPDECOMPOSITION_EXPORT std::string toJSON(const RGroupRow &rgr, const std::string &prefix="")' at line 82 of file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupUtils.h 'RDKIT_RGROUPDECOMPOSITION_EXPORT std::string toJSON(const RGroupRows &rgr, const std::string &prefix="")' at line 86 of file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupUtils.h 'RDKIT_RGROUPDECOMPOSITION_EXPORT std::string toJSON(const RGroupColumn &rgr, const std::string &prefix="")' at line 90 of file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/RGroupUtils.h /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: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' /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' 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... 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 /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitOps.h:188: warning: found at different nesting level (7) than expected (4) /build/reproducible-path/rdkit-202503.6/Code/DataStructs/BitOps.h:189: warning: end of comment block while expecting command for file LessQuery.h... Generating code for file NullQueryAlgebra.h... Generating code for file OrQuery.h... Generating code for file Query.h... Generating code for file QueryObjects.h... Generating code for file RangeQuery.h... Generating code for file SetQuery.h... Generating code for file XOrQuery.h... Generating code for file boost_numpy.h... Generating code for file import_array.h... Generating code for file pyint_api.h... Generating code for file PySequenceHolder.h... Generating code for file python.h... Generating code for file python_streambuf.h... Generating code for file BadFileException.h... Generating code for file BetterEnums.h... Generating code for file BoostEndInclude.h... Generating code for file BoostStartInclude.h... Generating code for file ConcurrentQueue.h... Generating code for file ControlCHandler.h... Generating code for file Dict.h... Generating code for file enum.h... Generating code for file Exceptions.h... Generating code for file export.h... Generating code for file FileParseException.h... Generating code for file hanoiSort.h... 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... Generating docs for file ChemicalFeature.h... Generating docs for file FreeChemicalFeature.h... Generating docs for file MetricFuncs.h... Generating docs for file MetricMatrixCalc.h... Generating docs for file base64.h... Generating docs for file BitOps.h... Generating docs for file BitVect.h... Generating docs for file BitVects.h... Generating docs for file BitVectUtils.h... Generating docs for file DatastructsException.h... Generating docs for file DatastructsStreamOps.h... Generating docs for file DiscreteDistMat.h... Generating docs for file DiscreteValueVect.h... Generating docs for file ExplicitBitVect.h... Generating docs for file FPBReader.h... Generating docs for file MultiFPBReader.h... Generating docs for file RealValueVect.h... Generating docs for file SparseBitVect.h... Generating docs for file SparseIntVect.h... Generating docs for file BoundsMatrix.h... Generating docs for file ChiralSet.h... Generating docs for file ChiralViolationContribs.h... Generating docs for file DistGeomUtils.h... Generating docs for file DistViolationContribs.h... Generating docs for file FourthDimContribs.h... Generating docs for file TriangleSmooth.h... Generating docs for file Feature.h... Generating docs for file AngleConstraints.h... Generating docs for file Contrib.h... Generating docs for file DistanceConstraints.h... Generating docs for file ForceField.h... Generating docs for file OopBend.h... Generating docs for file StretchBend.h... Generating docs for file AngleBend.h... Generating docs for file AngleBend.h... Generating docs for file AngleConstraint.h... Generating docs for file AngleConstraint.h... Generating docs for file AngleConstraint.h... Generating docs for file BondStretch.h... Generating docs for file BondStretch.h... Generating docs for file Contribs.h... Generating docs for file Contribs.h... Generating docs for file DistanceConstraint.h... Generating docs for file DistanceConstraint.h... Generating docs for file DistanceConstraint.h... Generating docs for file Inversion.h... Generating docs for file Inversions.h... Generating docs for file Nonbonded.h... Generating docs for file Nonbonded.h... Generating docs for file Params.h... Generating docs for file Params.h... Generating docs for file PositionConstraint.h... Generating docs for file PositionConstraint.h... Generating docs for file PositionConstraint.h... Generating docs for file TorsionAngle.h... Generating docs for file TorsionAngle.h... Generating docs for file TorsionConstraint.h... Generating docs for file TorsionConstraint.h... Generating docs for file TorsionConstraint.h... Generating docs for file Utils.h... Generating docs for file Utils.h... Generating docs for file Grid3D.h... Generating docs for file GridUtils.h... Generating docs for file point.h... Generating docs for file Transform.h... Generating docs for file Transform2D.h... Generating docs for file Transform3D.h... Generating docs for file UniformGrid3D.h... Generating docs for file UniformRealValueGrid3D.h... Generating docs for file Abbreviations.h... Generating docs for file Atom.h... Generating docs for file atomic_data.h... Generating docs for file AtomIterators.h... Generating docs for file Atropisomers.h... Generating docs for file Bond.h... Generating docs for file BondIterators.h... Generating docs for file Canon.h... Generating docs for file CartesianProduct.h... Generating docs for file Enumerate.h... Generating docs for file EnumerateBase.h... Generating docs for file EnumerateTypes.h... Generating docs for file EnumerationPickler.h... Generating docs for file EnumerationStrategyBase.h... Generating docs for file EvenSamplePairs.h... Generating docs for file RandomSample.h... Generating docs for file RandomSampleAllBBs.h... Generating docs for file PreprocessRxn.h... Generating docs for file Reaction.h... Generating docs for file ReactionFingerprints.h... Generating docs for file ReactionParser.h... Generating docs for file ReactionPickler.h... Generating docs for file ReactionRunner.h... Generating docs for file ReactionUtils.h... Generating docs for file SanitizeRxn.h... Generating docs for file ChemTransforms.h... Generating docs for file MolFragmenter.h... Generating docs for file MolFragmenterJSONParser.h... Generating docs for file Chirality.h... Generating docs for file CIPLabeler.h... Generating docs for file CIPMol.h... Generating docs for file AtropisomerBond.h... Generating docs for file Configuration.h... Generating docs for file Sp2Bond.h... Generating docs for file Tetrahedral.h... Generating docs for file Descriptor.h... Generating docs for file Digraph.h... Generating docs for file Edge.h... Generating docs for file Mancude.h... Generating docs for file Node.h... Generating docs for file Priority.h... Generating docs for file Pairlist.h... Generating docs for file Rule1a.h... Generating docs for file Rule1b.h... Generating docs for file Rule2.h... Generating docs for file Rule3.h... Generating docs for file Rule4a.h... Generating docs for file Rule4b.h... Generating docs for file Rule4c.h... Generating docs for file Rule5.h... Generating docs for file Rule5New.h... Generating docs for file Rule6.h... Generating docs for file Rules.h... Generating docs for file SequenceRule.h... Generating docs for file Sort.h... Generating docs for file TooManyNodesException.h... Generating docs for file Conformer.h... Generating docs for file DepictUtils.h... Generating docs for file EmbeddedFrag.h... Generating docs for file RDDepictor.h... Generating docs for file Templates.h... Generating docs for file TemplateSmiles.h... Generating docs for file Deprotect.h... Generating docs for file AtomFeat.h... Generating docs for file AUTOCORR2D.h... Generating docs for file AUTOCORR3D.h... Generating docs for file BCUT.h... Generating docs for file ConnectivityDescriptors.h... Generating docs for file CoulombMat.h... Generating docs for file Crippen.h... Generating docs for file Data3Ddescriptors.h... Generating docs for file DCLV.h... Generating docs for file EEM.h... Generating docs for file GETAWAY.h... Generating docs for file Lipinski.h... Generating docs for file MolData3Ddescriptors.h... Generating docs for file MolDescriptors.h... Generating docs for file MolDescriptors3D.h... Generating docs for file MolSurf.h... Generating docs for file MORSE.h... Generating docs for file MQN.h... Generating docs for file OxidationNumbers.h... Generating docs for file PBF.h... Generating docs for file PMI.h... Generating docs for file Property.h... Generating docs for file RDF.h... Generating docs for file RegisterDescriptor.h... Generating docs for file USRDescriptor.h... Generating docs for file WHIM.h... Generating docs for file details.h... Generating docs for file details.h... Generating docs for file DetermineBonds.h... Generating docs for file BoundsMatrixBuilder.h... Generating docs for file Embedder.h... Generating docs for file EnumerateStereoisomers.h... Generating docs for file Flippers.h... Generating docs for file CDXMLParser.h... Generating docs for file FileParsers.h... Generating docs for file FileParserUtils.h... Generating docs for file FileWriters.h... Generating docs for file GeneralFileReader.h... Generating docs for file MaestroProperties.h... Generating docs for file MolFileStereochem.h... Generating docs for file MolSGroupParsing.h... Generating docs for file MolSGroupWriting.h... Generating docs for file MolSupplier.h... Generating docs for file MolSupplier.v1API.h... Generating docs for file MolWriters.h... Generating docs for file MultithreadedMolSupplier.h... Generating docs for file MultithreadedSDMolSupplier.h... Generating docs for file MultithreadedSmilesMolSupplier.h... Generating docs for file PNGParser.h... Generating docs for file ProximityBonds.h... Generating docs for file SequenceParsers.h... Generating docs for file SequenceWriters.h... Generating docs for file FilterCatalog.h... Generating docs for file FilterCatalogEntry.h... Generating docs for file FilterMatcherBase.h... Generating docs for file FilterMatchers.h... Generating docs for file Filters.h... Generating docs for file FunctionalGroupHierarchy.h... Generating docs for file AtomPairGenerator.h... Generating docs for file AtomPairs.h... Generating docs for file FingerprintGenerator.h... Generating docs for file Fingerprints.h... Generating docs for file FingerprintUtil.h... Generating docs for file MACCS.h... Generating docs for file MHFP.h... Generating docs for file MorganFingerprints.h... Generating docs for file MorganGenerator.h... Generating docs for file RDKitFPGenerator.h... Generating docs for file TopologicalTorsionGenerator.h... Generating docs for file Composition2N.h... Generating docs for file DebugTrace.h... Generating docs for file DuplicatedSeedCache.h... Generating docs for file FMCS.h... Generating docs for file Graph.h... Generating docs for file MatchTable.h... Generating docs for file MaximumCommonSubgraph.h... Generating docs for file Seed.h... Generating docs for file SeedSet.h... Generating docs for file SubstructMatchCustom.h... Generating docs for file SubstructureCache.h... Generating docs for file Target.h... Generating docs for file TargetMatch.h... Generating docs for file TorsionAngleContribs.h... Generating docs for file TorsionAngleM6.h... Generating docs for file TorsionPreferences.h... Generating docs for file FFConvenience.h... Generating docs for file MMFF.h... Generating docs for file AtomTyper.h... Generating docs for file AtomTyper.h... Generating docs for file Builder.h... Generating docs for file Builder.h... Generating docs for file UFF.h... Generating docs for file FragCatalogEntry.h... Generating docs for file FragCatalogUtils.h... Generating docs for file FragCatGenerator.h... Generating docs for file FragCatParams.h... Generating docs for file FragFPGenerator.h... Generating docs for file XQMol.h... Generating docs for file GenericGroups.h... Generating docs for file GraphMol.h... Generating docs for file MarvinDefs.h... Generating docs for file MarvinParser.h... Generating docs for file MMPA.h... Generating docs for file AlignMolecules.h... Generating docs for file O3AAlignMolecules.h... Generating docs for file MolBundle.h... Generating docs for/build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h:526: warning: Found unknown command '\overloadquery' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h:535: warning: Found unknown command '\overloadquery' file MolCatalog.h... Generating docs for file MolCatalogEntry.h... Generating docs for file MolCatalogParams.h... Generating docs for file FeatureParser.h... Generating docs for file MolChemicalFeature.h... Generating docs for file MolChemicalFeatureDef.h... Generating docs for file MolChemicalFeatureFactory.h... Generating docs for file AtomSymbol.h... Generating docs for file DrawAnnotation.h... Generating docs for file DrawMol.h... Generating docs for file DrawMolMCH.h... Generating docs for file DrawMolMCHCircleAndLine.h... Generating docs for file DrawMolMCHLasso.h... Generating docs for file DrawShape.h... Generating docs for file DrawText.h... Generating docs for file DrawTextCairo.h... Generating docs for file DrawTextFT.h... Generating docs for file DrawTextFTCairo.h... Generating docs for file DrawTextFTJS.h... Generating docs for file DrawTextFTSVG.h... Generating docs for file DrawTextJS.h... Generating docs for file DrawTextNotFT.h... Generating docs for file DrawTextSVG.h... Generating docs for file roboto_regular.h... Generating docs for file telex_regular.h... Generating docs for file MolDraw2D.h... Generating docs for file MolDraw2DCairo.h... Generating docs for file MolDraw2DDetails.h... Generating docs for file MolDraw2DHelpers.h... Generating docs for file MolDraw2DJS.h... Generating docs for file MolDraw2DSVG.h... Generating docs for file MolDraw2DUtils.h... Generating docs for file MolDraw2Dwx.h... Generating docs for file DrawTextFTQt.h... Generating docs for file DrawTextQt.h... Generating docs for file MolDraw2DQt.h... Generating docs for file StringRect.h... Generating docs for file LinkNode.h... Generating docs for file MolEnumerator.h... Generating docs for file mf.h... Generating docs for file MolHash.h... Generating docs for file nmmolhash.h... Generating docs for file MIFDescriptors.h... Generating docs for file MolInterchange.h... Generating docs for file MolOps.h... Generating docs for file MolPickler.h... Generating docs for file MolProcessing.h... Generating docs for file AcidBaseCatalogEntry.h... Generating docs for file AcidBaseCatalogParams.h... Generating docs for file AcidBaseCatalogUtils.h... Generating docs for file Charge.h... Generating docs for file Fragment.h... Generating docs for file FragmentCatalogEntry.h... Generating docs for file FragmentCatalogParams.h... Generating docs for file FragmentCatalogUtils.h... Generating docs for file Metal.h... Generating docs for file MolStandardize.h... Generating docs for file Normalize.h... Generating docs for file Pipeline.h... Generating docs for file TautomerCatalogEntry.h... Generating docs for file TautomerCatalogParams.h... Generating docs for file TautomerCatalogUtils.h... Generating docs for file TransformCatalogEntry.h... Generating docs for file TransformCatalogParams.h... Generating docs for file TransformCatalogUtils.h... Generating docs for file Validate.h... Generating docs for file MolTransforms.h... Generating docs for file MonomerInfo.h... Generating docs for file new_canon.h... Generating docs for file GasteigerCharges.h... Generating docs for file GasteigerParams.h... Generating docs for file PeriodicTable.h... Generating docs for file QueryAtom.h... Generating docs for file QueryBond.h... Generating docs for file QueryOps.h... Generating docs for file PartitionSet.h... Generating docs for file RascalClusterOptions.h... Generating docs for file RascalDetails.h... Generating docs for file RascalMCES.h... Generating docs for file RascalOptions.h... Generating docs for file RascalResult.h... Generating docs for file RDKitBase.h... Generating docs for file RDKitQueries.h... Generating docs for file ReducedGraphs.h... Generating docs for file Resonance.h... Generating docs for file RGroupCore.h... Generating docs for file RGroupData.h... Generating docs for file RGroupDecomp.h... Generating docs for file RGroupDecompData.h... Generating docs for file RGroupDecompJSONParsers.h... Generating docs for file RGroupDecompParams.h... Generating docs for file RGroupFingerprintScore.h... Generating docs for file RGroupGa.h... Generating docs for file RGroupMatch.h... Generating docs for file RGroupScore.h... Generating docs for file RGroupUtils.h... Generating docs for file RingInfo.h... Generating docs for file Rings.h... Generating docs for file ROMol.h... Generating docs for file RWMol.h... Generating docs for file SanitException.h... Generating docs for file detail.h... Generating docs for file ScaffoldNetwork.h... Generating docs for file ShapeEncoder.h... Generating docs for file ShapeUtils.h... Generating docs for file SLNAttribs.h... Generating docs for file SLNParse.h... 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Generating docs for file Conrec.h... Generating docs for file PowerEigenSolver.h... Generating docs for file Matrix.h... Generating docs for file BFGSOpt.h... Generating docs for file SquareMatrix.h... Generating docs for file SymmMatrix.h... Generating docs for file Vector.h... Generating docs for file AndQuery.h... Generating docs for file EqualityQuery.h... Generating docs for file GreaterEqualQuery.h... Generating docs for file GreaterQuery.h... Generating docs for file LessEqualQuery.h... Generating docs for file LessQuery.h... Generating docs for file NullQueryAlgebra.h... Generating docs for file OrQuery.h... Generating docs for file Query.h... Generating docs for file QueryObjects.h... Generating docs for file RangeQuery.h... Generating docs for file SetQuery.h... Generating docs for file XOrQuery.h... Generating docs for file boost_numpy.h... Generating docs for file import_array.h... Generating docs for file pyint_api.h... Generating docs for file PySequenceHolder.h... Generating docs for file python.h... Generating docs for file python_streambuf.h... Generating docs for file BadFileException.h... Generating docs for file BetterEnums.h... Generating docs for file BoostEndInclude.h... Generating docs for file BoostStartInclude.h... Generating docs for file ConcurrentQueue.h... Generating docs for file ControlCHandler.h... Generating docs for file Dict.h... Generating docs for file enum.h... Generating docs for file Exceptions.h... Generating docs for file export.h... Generating docs for file FileParseException.h... Generating docs for/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) /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' 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 PySequenceHolder... 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::_eat_assign... Generating docs for compound better_enums::_initialize_at_program_start... Generating docs for compound better_enums::_iterable... Generating docs for compound better_enums::map... Generating docs for compound better_enums::map_compare... 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::optional... 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::ostream... 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 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::ChiralViolationContribs... Generating docs for compound DistGeom::ChiralViolationContribsParams... Generating docs for compound DistGeom::DistViolationContribs... Generating docs for compound DistGeom::DistViolationContribsParams... Generating docs for compound DistGeom::FourthDimContribs... Generating docs for compound DistGeom::FourthDimContribsParams... Generating docs for namespace ForceFields Generating docs for compound ForceFields::AngleConstraintContrib... Generating docs for compound ForceFields::AngleConstraintContribs... Generating docs for compound ForceFields::AngleConstraintContribsParams... Generating docs for compound ForceFields::DistanceConstraintContrib... Generating docs for compound ForceFields::DistanceConstraintContribs... Generating docs for compound ForceFields::DistanceConstraint/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' ContribsParams... Generating docs for compound ForceFields::ForceField... Generating docs for compound ForceFields::ForceFieldContrib... Generating docs for compound ForceFields::PositionConstraintContrib... Generating docs for compound ForceFields::TorsionConstraintContrib... Generating docs for namespace ForceFields::CrystalFF Generating docs for compound ForceFields::CrystalFF::CrystalFFDetails... Generating docs for compound ForceFields::CrystalFF::ExpTorsionAngle... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribM6... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribs... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribsParams... 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::EleContrib... Generating docs for compound ForceFields::MMFF::MMFFAngle... Generating docs for compound ForceFields::MMFF::MMFFAngleCollection... Generating docs for compound ForceFields::MMFF::MMFFAromCollection... Generating docs for compound ForceFields::MMFF::MMFFBndkCollection... Generating docs for compound ForceFields::MMFF::MMFFBond... Generating docs for compound ForceFields::MMFF::MMFFBondCollection... Generating docs for compound ForceFields::MMFF::MMFFChg... Generating docs for compound ForceFields::MMFF::MMFFChgCollection... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEle... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEleCollection... Generating docs for compound ForceFields::MMFF::MMFFDef... Generating docs for compound ForceFields::MMFF::MMFFDefCollection... Generating docs for compound ForceFields::MMFF::MMFFDfsbCollection... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurie... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurieCollection... Generating docs for compound ForceFields::MMFF::MMFFOop... Generating docs for compound ForceFields::MMFF::MMFFOopCollection... Generating docs for compound ForceFields::MMFF::MMFFPBCI... Generating docs for compound ForceFields::MMFF::MMFFPBCICollection... Generating docs for compound ForceFields::MMFF::MMFFProp... Generating docs for compound ForceFields::MMFF::MMFFPropCollection... Generating docs for compound ForceFields::MMFF::MMFFStbn... Generating docs for compound ForceFields::MMFF::MMFFStbnCollection... Generating docs for compound ForceFields::MMFF::MMFFTor... Generating docs for compound ForceFields::MMFF::MMFFTorCollection... Generating docs for compound ForceFields::MMFF::MMFFVdW... Generating docs for compound ForceFields::MMFF::MMFFVdWCollection... Generating docs for compound ForceFields::MMFF::MMFFVdWRijstarEps... Generating docs for compound ForceFields::MMFF::NonbondedContrib... Generating docs for compound ForceFields::MMFF::OopBendContrib... Generating docs for compound ForceFields::MMFF::StretchBendContrib... Generating docs for compound ForceFields::MMFF::TorsionAngleContrib... Generating docs for compound ForceFields::MMFF::VdWContrib... 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::AtomicParams... Generating docs for compound ForceFields::UFF::BondStretchContrib... Generating docs for compound ForceFields::UFF::InversionContrib... Generating docs for compound ForceFields::UFF::InversionContribs... Generating docs for compound ForceFields::UFF::InversionContribsParams... Generating docs for compound ForceFields::UFF::ParamCollection... Generating docs for compound ForceFields::UFF::TorsionAngleContrib... Generating docs for compound ForceFields::UFF::UFFAngle... Generating docs for compound ForceFields::UFF::UFFBond... Generating docs for compound ForceFields::UFF::UFFInv... Generating docs for compound ForceFields::UFF::UFFTor... Generating docs for compound ForceFields::UFF::UF/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' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h:526: warning: Found unknown command '\overloadquery' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h:535: warning: Found unknown command '\overloadquery' /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/QueryOps.h:526: warning: Found unknown command '\overloadquery' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/QueryOps.h:535: warning: Found unknown command '\overloadquery' /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/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' FVdW... Generating docs for compound ForceFields::UFF::vdWContrib... 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... Generating docs for compound Queries::EqualityQuery... Generating docs for compound Queries::GreaterEqualQuery... Generating docs for compound Queries::GreaterQuery... Generating docs for compound Queries::Int2Type... Generating docs for compound Queries::LessEqualQuery... Generating docs for compound Queries::LessQuery... Generating docs for compound Queries::OrQuery... Generating docs for compound Queries::Query... Generating docs for compound Queries::RangeQuery... Generating docs for compound Queries::SetQuery... Generating docs for compound Queries::XOrQuery... Generating docs for namespace Rankers Generating docs for namespace RDCatalog Generating docs for compound RDCatalog::Catalog... Generating docs for compound RDCatalog::CatalogEntry... Generating docs for compound RDCatalog::CatalogParams... Generating docs for compound RDCatalog::HierarchCatalog... Generating docs for nested compound RDCatalog::HierarchCatalog::vertex_entry_t... Generating docs for namespace RDDataManip Generating docs for compound RDDataManip::MetricMatrixCalc... Generating docs for namespace RDDepict Generating docs for compound RDDepict::Compute2DCoordParameters... Generating docs for compound RDDepict::ConstrainedDepictionParams... Generating docs for compound RDDepict::CoordinateTemplates... Generating docs for compound RDDepict::DepictException... Generating docs for compound RDDepict::EmbeddedAtom... Generating docs for compound RDDepict::EmbeddedFrag... Generating docs for compound RDDepict::gtIIPair... Generating docs for namespace RDFeatures Generating docs for compound RDFeatures::ExplicitFeature... Generating docs for compound RDFeatures::ImplicitFeature... Generating docs for namespace RDGeom Generating docs for compound RDGeom::Grid3D... Generating docs for compound RDGeom::GridException... Generating docs for compound RDGeom::Point... Generating docs for compound RDGeom::Point2D... Generating docs for compound RDGeom::Point3D... 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... Generating docs for namespace RDKit Generating docs for compound RDKit::AdditionalOutput... Generating docs for compound RDKit::AromaticAtomIterator_... Generating docs for compound RDKit::Atom... Generating docs for compound RDKit::AtomEnvironment... Generating docs for compound RDKit::AtomEnvironmentGenerator... Generating docs for compound RDKit::atomicData... Generating docs for compound RDKit::AtomInvariantsGenerator... Generating docs for compound RDKit::AtomIterator_... Generating docs for compound RDKit::AtomKekulizeException... Generating docs for compound RDKit::AtomMonomerInfo... Generating docs for compound RDKit::AtomPDBResidueInfo... Generating docs for compound RDKit::AtomRingQuery... Generating docs for compound RDKit::AtomSanitizeException... Generating docs for compound RDKit::AtomValenceException... Generating docs for compound RDKit::BadFileException... Generating docs for compound RDKit::Bond... Generating docs for compound RDKit::BondInvariantsGenerator... Generating docs for compound RDKit::BondIterator_... Generating docs for compound RDKit::CachedMolHolder... Generating docs for compound RDKit::CachedSmilesMolHolder... Generating docs for compound RDKit::CachedTrustedSmilesMolHolder... Generating docs for compound RDKit::CartesianProduct... Generating docs for /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/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/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' compound RDKit::CartesianProductStrategy... Generating docs for compound RDKit::charptr_functor... Generating docs for compound RDKit::ChemicalReaction... Generating docs for compound RDKit::ChemicalReactionException... Generating docs for compound RDKit::ChemicalReactionParserException... Generating docs for compound RDKit::Conformer... Generating docs for compound RDKit::ConformerException... Generating docs for compound RDKit::ConstBondIterator_... Generating docs for compound RDKit::ControlCCaught... Generating docs for compound RDKit::ControlCHandler... Generating docs for compound RDKit::CustomPropHandler... Generating docs for compound RDKit::CXXAtomIterator... Generating docs for nested compound RDKit::CXXAtomIterator::CXXAtomIter... Generating docs for compound RDKit::CXXBondIterator... Generating docs for nested compound RDKit::CXXBondIterator::CXXBondIter... Generating docs for compound RDKit::DataStructsExplicitBitVecPropHandler... Generating docs for compound RDKit::Dict... Generating docs for nested compound RDKit::Dict::Pair... Generating docs for compound RDKit::DiscreteDistMat... Generating docs for compound RDKit::DiscreteValueVect... Generating docs for compound RDKit::DrawColour... Generating docs for compound RDKit::EnumerateLibrary... Generating docs for compound RDKit::EnumerateLibraryBase... Generating docs for compound RDKit::EnumerationParams... Generating docs for compound RDKit::EnumerationStrategyBase... Generating docs for compound RDKit::EnumerationStrategyException... Generating docs for compound RDKit::EvenSamplePairsStrategy... Generating docs for compound RDKit::ExclusionList... Generating docs for compound RDKit::FeatureFileParseException... Generating docs for compound RDKit::FileParseException... Generating docs for compound RDKit::FilterCatalog... Generating docs for compound RDKit::FilterCatalogEntry... Generating docs for compound RDKit::FilterCatalogParams... Generating docs for compound RDKit::FilterData_t... Generating docs for compound RDKit::FilterHierarchyMatcher... Generating docs for compound RDKit::FilterMatch... Generating docs for compound RDKit::FilterMatcherBase... Generating docs for compound RDKit::FilterProperty_t... Generating docs for compound RDKit::FingerprintArguments... Generating docs for compound RDKit::FingerprintFuncArguments... Generating docs for compound RDKit::FingerprintGenerator... Generating docs for compound RDKit::FingerprintVarianceScoreData... Generating docs for compound RDKit::FixedMolSizeMolBundle... Generating docs for compound RDKit::FPBReader... Generating docs for compound RDKit::FPHolderBase... 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::GaResult... Generating docs for compound RDKit::GasteigerParams... Generating docs for compound RDKit::HasPropQuery... Generating docs for compound RDKit::HasPropWithValueQuery... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, ExplicitBitVect >... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, std::string >... Generating docs for compound RDKit::HasPropWithValueQueryBase... Generating docs for compound RDKit::HeteroatomIterator_... Generating docs for compound RDKit::KekulizeException... Generating docs for compound RDKit::KeyFromPropHolder... Generating docs for compound RDKit::KeyHolderBase... Generating docs for compound RDKit::larger_of... Generating docs for compound RDKit::ltDouble... Generating docs for compound RDKit::MarvinArrow... Generating docs for compound RDKit::MarvinAtom... Generating docs for compound RDKit::MarvinAttachmentPoint... Generating docs for compound RDKit::MarvinBond... Generating docs for compound RDKit::MarvinBondStereo... Generating docs for compound RDKit::MarvinCondition... Generating docs for compound RDKit::MarvinDataSgroup... Generating docs for compound RDKit::MarvinGenericSgroup... Generating docs for compound R/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) DKit::MarvinMol... Generating docs for compound RDKit::MarvinMolBase... Generating docs for compound RDKit::MarvinMonomerSgroup... Generating docs for compound RDKit::MarvinMulticenterSgroup... Generating docs for compound RDKit::MarvinMultipleSgroup... Generating docs for compound RDKit::MarvinPlus... Generating docs for compound RDKit::MarvinReaction... Generating docs for compound RDKit::MarvinRectangle... Generating docs for compound RDKit::MarvinSruCoModSgroup... Generating docs for compound RDKit::MarvinStereoGroup... Generating docs for compound RDKit::MarvinSuperatomSgroup... Generating docs for compound RDKit::MarvinSuperatomSgroupExpanded... Generating docs for compound RDKit::MarvinWriterException... Generating docs for compound RDKit::MatchingAtomIterator_... Generating docs for compound RDKit::MaxFindBondOrdersItersExceeded... Generating docs for compound RDKit::MCSAtomCompareParameters... Generating docs for compound RDKit::MCSBondCompareParameters... Generating docs for compound RDKit::MCSParameters... Generating docs for compound RDKit::MCSProgressData... Generating docs for compound RDKit::MCSResult... Generating docs for compound RDKit::MolBundle... Generating docs for compound RDKit::MolCatalogEntry... Generating docs for compound RDKit::MolCatalogParams... 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::MolDraw2DJS... Generating docs for compound RDKit::MolDraw2DQt... Generating docs for compound RDKit::MolDraw2DSVG... Generating docs for compound RDKit::MolDraw2Dwx... Generating docs for compound RDKit::MolDrawOptions... Generating docs for compound RDKit::MolHolder... Generating docs for compound RDKit::MolHolderBase... Generating docs for compound RDKit::MolMatchFinalCheckFunctor... Generating docs for compound RDKit::MolPickler... Generating docs for compound RDKit::MolPicklerException... Generating docs for compound RDKit::MolSanitizeException... Generating docs for compound RDKit::MolWriter... Generating docs for compound RDKit::MolWriterParams... Generating docs for compound RDKit::MolzipParams... Generating docs for compound RDKit::MrvWriterParams... Generating docs for compound RDKit::MultiFPBReader... Generating docs for compound RDKit::PairHolder... Generating docs for compound RDKit::PatternHolder... Generating docs for compound RDKit::PDBWriter... Generating docs for compound RDKit::PeriodicTable... Generating docs for compound RDKit::PNGMetadataParams... Generating docs for compound RDKit::QueryAtom... Generating docs for compound RDKit::QueryAtomIterator_... Generating docs for compound RDKit::QueryBond... Generating docs for compound RDKit::RandomSampleAllBBsStrategy... Generating docs for compound RDKit::RandomSampleStrategy... Generating docs for compound RDKit::RCore... Generating docs for compound RDKit::RDAny... Generating docs for compound RDKit::RDProps... Generating docs for compound RDKit::RDValue... Generating docs for compound RDKit::ReactionFingerprintParams... Generating docs for compound RDKit::ReactionPickler... Generating docs for compound RDKit::ReactionPicklerException... Generating docs for compound RDKit::RealValueVect... Generating docs for compound RDKit::RecursiveStructureQuery... Generating docs for compound RDKit::ResonanceMolSupplier... Generating docs for compound RDKit::ResonanceMolSupplierCallback... Generating docs for compound RDKit::RGroupData... Generating docs for compound RDKit::RGroupDecompData... Generating docs for nested compound RDKit::RGroupDecompData::UsedLabels... Generating docs for compound RDKit::RGroupDecomposition... Generating docs for compound RDKit::RGroupDecompositionChromosome... Generating docs for compound RDKit::RGroupDecompositionParameters... Generating docs for compound RDKit::RGroupDecompositionProcessResult... Generating docs for compound RDKit::RGroupGa../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/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' /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' . Generating docs for compound RDKit::RGroupMatch... Generating docs for compound RDKit::RGroupScorer... Generating docs for compound RDKit::RigorousEnhancedStereoException... Generating docs for compound RDKit::RingInfo... Generating docs for compound RDKit::ROMol... Generating docs for compound RDKit::RWMol... Generating docs for compound RDKit::RxnSanitizeException... Generating docs for compound RDKit::SDWriter... Generating docs for compound RDKit::SLNParseException... Generating docs for compound RDKit::SmartsMatcher... Generating docs for compound RDKit::SmilesWriteParams... Generating docs for compound RDKit::SmilesWriter... Generating docs for compound RDKit::Snapshot... Generating docs for compound RDKit::SparseIntVect... Generating docs for compound RDKit::StereoBondThresholds... Generating docs for compound RDKit::StereoGroup... 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::SubstanceGroupException... Generating docs for compound RDKit::SubstructLibrary... Generating docs for compound RDKit::SubstructMatchParameters... Generating docs for compound RDKit::TautomerPatternHolder... Generating docs for compound RDKit::TautomerQuery... Generating docs for compound RDKit::TDTWriter... Generating docs for compound RDKit::Trajectory... Generating docs for compound RDKit::UnimplementedFPException... Generating docs for compound RDKit::UsedLabelMap... Generating docs for compound RDKit::VarianceDataForLabel... 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::AtomPairArguments... Generating docs for compound RDKit::AtomPair::AtomPairAtomEnv... Generating docs for compound RDKit::AtomPair::AtomPairAtomInvGenerator... Generating docs for compound RDKit::AtomPair::AtomPairEnvGenerator... Generating docs for namespace RDKit::AtomPairs Generating docs for namespace RDKit::Atropisomers Generating docs for namespace RDKit::Canon Generating docs for compound RDKit::Canon::AtomCompareFunctor... Generating docs for compound RDKit::Canon::bondholder... Generating docs for compound RDKit::Canon::canon_atom... Generating docs for compound RDKit::Canon::ChiralAtomCompareFunctor... Generating docs for compound RDKit::Canon::MolStackElem... Generating docs for compound RDKit::Canon::MolStackUnion... Generating docs for compound RDKit::Canon::SpecialChiralityAtomCompareFunctor... Generating docs for compound RDKit::Canon::SpecialSymmetryAtomCompareFunctor... Generating docs for namespace RDKit::Canon::detail Generating docs for namespace RDKit::Chirality Generating docs for compound RDKit::Chirality::BondWedgingParameters... Generating docs for compound RDKit::Chirality::StereoInfo... Generating docs for compound RDKit::Chirality::WedgeInfoAtropisomer... Generating docs for compound RDKit::Chirality::WedgeInfoBase... Generating docs for compound RDKit::Chirality::WedgeInfoChiral... Generating docs for namespace RDKit::Chirality::detail Generating docs for namespace RDKit::CIPLabeler Generating docs for compound RDKit::CIPLabeler::AtropisomerBond... Generating docs for compound RDKit::CIPLabeler::CIPMol... Generating docs for compound RDKit::CIPLabeler::CIPMolSpan... Generating docs for nested compound RDKit::CIPLabeler::CIPMolSpan::CIPMolIter... Generating docs for compound RDKit::CIPLabeler::Configuration... Generating docs for compound RDKit::CIPLabeler::Digraph... Generating docs for compound RDKit::CIPLabeler::Edge... Generating docs for compound RDKit::CIPLabeler::MaxIterationsExceeded... Generating docs for compound RDKit::CIPLabeler::Node... Generating docs for compound RDKit::CIPLab/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' /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: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/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' eler::PairList... Generating docs for compound RDKit::CIPLabeler::Priority... 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::Sp2Bond... Generating docs for compound RDKit::CIPLabeler::Tetrahedral... 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::CrippenParamCollection... Generating docs for compound RDKit::Descriptors::CrippenParams... Generating docs for compound RDKit::Descriptors::DoubleCubicLatticeVolume... Generating docs for compound RDKit::Descriptors::Properties... Generating docs for compound RDKit::Descriptors::PropertyFunctor... 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::EnumerateStereoisomers::details::AtomFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::AtropisomerFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::BondFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::Flipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::StereoGroupFlipper... 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::Not... Generating docs for compound RDKit::FilterMatchOps::Or... Generating docs for namespace RDKit::FMCS Generating docs for compound RDKit::FMCS::Composition2N... Generating docs for compound RDKit::FMCS::DuplicatedSeedCache... Generating docs for nested compound RDKit::FMCS::DuplicatedSeedCache::TKey... Generating docs for compound RDKit::FMCS::ExecStatistics... Generating docs for compound RDKit::FMCS::Graph... 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::HashKey... Gener/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' /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' ating docs for nested compound RDKit::FMCS::SubstructureCache::KeyNumericMetrics... Generating docs for compound RDKit::FMCS::Target... Generating docs for compound RDKit::FMCS::TargetMatch... Generating docs for compound RDKit::FMCS::TArray2D... 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::LAP... Generating docs for compound RDKit::MolAlign::MolAlignException... Generating docs for compound RDKit::MolAlign::MolHistogram... Generating docs for compound RDKit::MolAlign::O3A... Generating docs for compound RDKit::MolAlign::O3AConstraint... Generating docs for compound RDKit::MolAlign::O3AConstraintVect... Generating docs for compound RDKit::MolAlign::O3AFuncData... Generating docs for compound RDKit::MolAlign::SDM... 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::MolDraw2D_detail::DrawMolMCHCircleAndLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCHLasso... Generating docs for compound RDKit::MolDraw2D_detail::DrawShape... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeArc... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeArrow... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeDashedWedge... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeEllipse... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapePolyLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeSimpleLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeSolidWedge... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeWavyLine... 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::DrawTextFTQt... 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::DrawTextQt... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextSVG... Generating docs for compound RDKit::MolDraw2D_detail::LinePair... Generating docs for compound RDKit::MolDraw2D_detail::StringRect.../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/MolEnumerator/MolEnumerator.h:132: 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:139: 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:142: 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:139: 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:77: warning: Found unknown command '\override' /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:84: warning: Found unknown command '\override' /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:87: 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:84: warning: Found unknown command '\override' /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:206: 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:213: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:216: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/MolEnumerator.h:216: 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/MolEnumerator/MolEnumerator.h:213: 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/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' 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::LinkNodeOp... Generating docs for compound RDKit::MolEnumerator::MolEnumeratorOp... Generating docs for compound RDKit::MolEnumerator::MolEnumeratorParams... Generating docs for compound RDKit::MolEnumerator::PositionVariationOp... Generating docs for compound RDKit::MolEnumerator::RepeatUnitOp... 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::AdjustQueryParameters... Generating docs for compound RDKit::MolOps::Hybridizations... Generating docs for compound RDKit::MolOps::RemoveHsParameters... 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::AllowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::ChargeCorrection... Generating docs for compound RDKit::MolStandardize::CleanupParameters... Generating docs for compound RDKit::MolStandardize::CompositeValidation... 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::FragmentCatalogEntry... Generating docs for compound RDKit::MolStandardize::FragmentCatalogParams... Generating docs for compound RDKit::MolStandardize::FragmentRemover... Generating docs for compound RDKit::MolStandardize::FragmentValidation... Generating docs for compound RDKit::MolStandardize::Is2DValidation... Generating docs for compound RDKit::MolStandardize::IsotopeValidation... Generating docs for compound RDKit::MolStandardize::LargestFragmentChooser... Generating docs for nested compound RDKit::MolStandardize::LargestFragmentChooser::Largest... Generating docs for compound RDKit::MolStandardize::Layout2DValidation... Generating docs for compound RDKit::MolStandardize::MetalDisconnector... Generating docs for compound RDKit::MolStandardize::MetalDisconnectorOptions... Generating docs for compound RDKit::MolStandardize::MolVSValidation... Generating docs for compound RDKit::MolStandardize::NeutralValidation... Generating docs for compound RDKit::MolStandardize::NoAtomValidation... Generating docs for compound RDKit::MolStandardize::Normalizer... Generating docs for compound RDKit::MolStandardize::Pipeline... Generating docs for compound RDKit::MolStandardize::PipelineLogEntry... Generating docs for compound RDKit::MolStandardize::PipelineOptions... Generating docs for compound RDKit::MolStandardize::PipelineResult... Generating docs for compound RDKit::MolStandardize::RDKitValidation... Generating docs for compound RDKit::MolStandardize::Reionizer... Generating docs for compound RDKit::MolStandardize::StereoValidation... Generating docs for compound RDKit::MolStandardize::Tautomer... Generating docs for compound RDKit::MolStandardize::TautomerCatalogEntry... Generating docs for/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' /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/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) compound RDKit::MolStandardize::TautomerCatalogParams... Generating docs for compound RDKit::MolStandardize::TautomerEnumerator... Generating docs for compound RDKit::MolStandardize::TautomerEnumeratorCallback... Generating docs for compound RDKit::MolStandardize::TautomerEnumeratorResult... Generating docs for nested compound RDKit::MolStandardize::TautomerEnumeratorResult::const_iterator... Generating docs for compound RDKit::MolStandardize::TautomerTransform... Generating docs for compound RDKit::MolStandardize::TransformCatalogEntry... Generating docs for compound RDKit::MolStandardize::TransformCatalogParams... Generating docs for compound RDKit::MolStandardize::Uncharger... Generating docs for compound RDKit::MolStandardize::ValidationMethod... 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::MorganArguments... Generating docs for compound RDKit::MorganFingerprint::MorganAtomEnv... Generating docs for compound RDKit::MorganFingerprint::MorganAtomInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganBondInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganEnvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganFeatureAtomInvGenerator... 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::RDKitFPArguments... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomEnv... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomInvGenerator... Generating docs for compound RDKit::RDKitFP::RDKitFPEnvGenerator... 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::NetworkEdge... Generating docs for compound RDKit::ScaffoldNetwork::ScaffoldNetwork... Generating docs for compound RDKit::ScaffoldNetwork::ScaffoldNetworkParams... 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::AugmentedAtom... Generating docs for compound RDKit::StructureCheck::ChargeFix... Generating docs for compound RDKit::StructureCheck::IncEntry... Generating docs for compound RDKit::StructureCheck::Lig/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 /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' and... Generating docs for compound RDKit::StructureCheck::Neighbourhood... Generating docs for compound RDKit::StructureCheck::PathEntry... Generating docs for compound RDKit::StructureCheck::StructChecker... Generating docs for compound RDKit::StructureCheck::StructCheckerOptions... Generating docs for compound RDKit::StructureCheck::StructCheckTautomer... 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::SynthonSpace... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceFingerprintSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceFPHitSet... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceHitSet... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceRascalSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceSearchParams... 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... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionEnvGenerator... 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 RDKit::v1::ForwardSDMolSupplier... Generating docs for compound RDKit::v1::MolSupplier... Generating docs for compound RDKit::v1::SDMolSupplier... Generating docs for compound RDKit::v1::SmartsParserParams... Generating docs for compound RDKit::v1::SmilesMolSupplier... Generating docs for compound RDKit::v1::SmilesParserParams... Generating docs for compound RDKit::v1::TDTMolSupplier... 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::ForwardSDMolSupplier... Generating docs for compound RDKit::v2::FileParsers::Mol2ParserParams... Generating docs for compound RDKit::v2::FileParsers::MolFileParserParams... Generating docs for compound RDKit::v2::FileParsers::MolFileUnhandledFeatureException... Generating docs for compound RDKit::v2::FileParsers::MolFromSCSRParams... Generating docs for compound RDKit::v2::FileParsers::MolSupplier... Generating docs for compound RDKit::v2::FileParsers::PDBParserParams... Generating docs for compound RDKit::v2::FileParsers::SDMolSupplier... Generating docs for compound RDKit::v2::FileParsers::SmilesMolSupplier... Generating docs for compound RDKit::v2::FileParsers::SmilesMolSupplierParams... Generating docs for compound RDKit::v2::FileParsers::TDTMolSupplier... Generating docs for compound RDKit::v2::FileParsers::TDTMolSupplierParams... Generating docs for compound RDKit::v2::FileParsers::TPLParserParams... Generating docs for namespace RDKit::v2::MarvinParser Generating docs for compound RDKit::v2::MarvinParser::MrvParserParams... Generating docs for namespace RDKit::v2::ReactionPar/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 ser Generating docs for namespace RDKit::v2::SmilesParse Generating docs for namespace RDLog Generating docs for namespace RDMIF Generating docs for compound RDMIF::Coulomb... Generating docs for compound RDMIF::CoulombDielectric... Generating docs for compound RDMIF::HBond... Generating docs for compound RDMIF::Hydrophilic... Generating docs for compound RDMIF::MMFFVdWaals... Generating docs for compound RDMIF::UFFVdWaals... Generating docs for compound RDMIF::VdWaals... Generating docs for namespace RDNumeric Generating docs for compound RDNumeric::Matrix... Generating docs for compound RDNumeric::SquareMatrix... Generating docs for compound RDNumeric::SymmMatrix... Generating docs for compound RDNumeric::Vector... 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... 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 38205/65536 hits=224388 misses=42547 symbol lookup cache used 33814/65536 hits=299925 misses=33814 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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Self-Contained Structure Representations (SCSR) for Macromolecules ******************* [docutils] /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... 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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, 392 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 -j4 test ARGS\+=--verbose ARGS\+=-j4 make[2]: Entering directory '/build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j4 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 Add coverage exclude regular expressions. 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: 1500 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: 1500 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: 1500 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: 1500 3: Randomness seeded to: 3009329635 3: static boost any:0.000709 s 4: Randomness seeded to: 874982885 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: 1/243 Test #4: testRDValue ............................ Passed 0.01 sec 3: dynamic boost any:0.002561 s 3: static RDAny:0.000372 s 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: 1500 3: dynamic RDAny:0.002596 s 3: static RDValue:1e-06 s 3: dynamic RDValue:1e-06 s 3: [20:40:05] done: 0.001306 300000 3: [20:40:05] done: 0.001426 300000 3: [20:40:05] done: 0.000389 300000 3: [20:40:05] done: 0.007046 300000 3: [20:40:05] done: 0.001654 300000 3: =============================================================================== 3: All tests passed (223 assertions in 9 test cases) 3: 2/243 Test #3: testDict ............................... Passed 0.03 sec 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: 1500 6: Randomness seeded to: 937608899 6: =============================================================================== 6: All tests passed (32 assertions in 2 test cases) 6: 3/243 Test #6: dictTestsCatch ......................... Passed 0.01 sec 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: 1500 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 7: [20:40:05] should not be silent 7: [20:40:05] should not be silent 7: Randomness seeded to: 4231245539 7: [20:40:05] should not be silent 7: [20:40:05] should not be silent 7: [20:40:05] should not be silent 7: [20:40:05] should not be silent 7: [20:40:05] should not be silent 7: [20:40:05] should not be silent 7: [20:40:05] should not be silent 1: 7: [20:40:05] should not be silent 7: =============================================================================== 7: All tests passed (26 assertions in 3 test cases) 7: 4/243 Test #7: logTestsCatch .......................... Passed 0.01 sec 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: 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: 1500 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: 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: Randomness seeded to: 1265198216 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: 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: 5/243 Test #8: testDataStructs ........................ 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: 1500 9: Randomness seeded to: 3080718694 9: =============================================================================== 9: All tests passed (632 assertions in 12 test cases) 9: 6/243 Test #9: testFPB ................................ Passed 0.01 sec 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: 1500 10: Randomness seeded to: 1129225615 10: =============================================================================== 10: All tests passed (228 assertions in 7 test cases) 10: 7/243 Test #10: testMultiFPB ........................... Passed 0.02 sec 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: 1500 11: Randomness seeded to: 755884790 11: =============================================================================== 11: All tests passed (3 assertions in 1 test case) 11: 8/243 Test #11: catchDataStructs ....................... Passed 0.01 sec 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: 1500 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: 9/243 Test #1: testCoordGen ........................... Passed 0.18 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: 1500 2: .... 2: ---------------------------------------------------------------------- 2: Ran 4 tests in 0.015s 2: 2: OK 10/243 Test #2: pyCoordGen ............................. Passed 0.28 sec 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: 1500 13: ...... 13: ---------------------------------------------------------------------- 13: Ran 6 tests in 0.002s 13: 13: OK 11/243 Test #13: pyDiscreteValueVect .................... Passed 0.16 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: 1500 14: ...... 14: ---------------------------------------------------------------------- 14: Ran 6 tests in 0.001s 14: 14: OK 12/243 Test #14: pyRealValueVect ........................ Passed 0.19 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: 1500 15: ......... 15: ---------------------------------------------------------------------- 15: Ran 9 tests in 0.004s 15: 15: OK 13/243 Test #15: pySparseIntVect ........................ Passed 0.21 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: 1500 17: Randomness seeded to: 4018679091 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: 14/243 Test #17: testTransforms ......................... Passed 0.01 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: 1500 18: Randomness seeded to: 1508751062 18: =============================================================================== 18: All tests passed (79 assertions in 5 test cases) 18: 15/243 Test #18: testGrid ............................... Passed 0.01 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: 1500 19: Randomness seeded to: 1823176380 19: =============================================================================== 19: All tests passed (52 assertions in 4 test cases) 19: 16/243 Test #19: testRealValueGrid ...................... Passed 0.02 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: 1500 20: Randomness seeded to: 3940210726 20: =============================================================================== 20: All tests passed (50 assertions in 5 test cases) 20: 17/243 Test #20: geometryTestsCatch ..................... Passed 0.01 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: 1500 16: ......... 16: ---------------------------------------------------------------------- 16: Ran 9 tests in 0.003s 16: 16: OK 18/243 Test #16: pyFPB .................................. Passed 0.20 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: 1500 22: Randomness seeded to: 748239204 22: =============================================================================== 22: All tests passed (81 assertions in 4 test cases) 22: 19/243 Test #22: testMatrices ........................... Passed 0.01 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: 1500 23: Randomness seeded to: 3566195197 23: =============================================================================== 23: All tests passed (76 assertions in 3 test cases) 23: 20/243 Test #23: testConrec ............................. Passed 0.01 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: 1500 24: Randomness seeded to: 2292862211 24: =============================================================================== 24: All tests passed (26 assertions in 4 test cases) 24: 21/243 Test #24: testAlignment .......................... Passed 0.01 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: 1500 21: .................... 21: ---------------------------------------------------------------------- 21: Ran 20 tests in 0.026s 21: 21: OK 21: Testing Geometry wrapper 22/243 Test #21: testPyGeometry ......................... Passed 0.23 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: 1500 26: Randomness seeded to: 4122034819 26: =============================================================================== 26: All tests passed (26 assertions in 2 test cases) 26: 23/243 Test #26: testOptimizer .......................... Passed 0.01 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: 1500 27: Randomness seeded to: 3791180117 27: =============================================================================== 27: All tests passed (20 assertions in 2 test cases) 27: 24/243 Test #27: ForceFieldsCatch ....................... Passed 0.01 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: 1500 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 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. 25: ..... 25: ---------------------------------------------------------------------- 25: Ran 5 tests in 0.001s 25: 25: OK 25: Testing Alignment Wrapper code: 28: done 28: ------------------------------------- 28: Unit tests for copying UFF ForceFields. 28: done 28: ------------------------------------- 28: Unit test for UFF butane scan. 25/243 Test #25: pyAlignment ............................ Passed 0.20 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: 1500 29: ------------------------------------- 29: Official MMFF validation suite. 28: done 26/243 Test #28: testUFFForceField ...................... Passed 0.14 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: 1500 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_dative.sdf... 30: ...[20:40:06] Molecule does not have explicit Hs. Consider calling AddHs() 30: ......[20:40:06] Molecule does not have explicit Hs. Consider calling AddHs() 30: ... 30: ---------------------------------------------------------------------- 30: Ran 12 tests in 0.502s 30: 30: OK 27/243 Test #30: pyForceFieldConstraints ................ Passed 0.76 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: 1500 31: Randomness seeded to: 244139297 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: 28/243 Test #31: testDistGeom ........................... Passed 0.02 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: 1500 32: ...... 32: ---------------------------------------------------------------------- 32: Ran 6 tests in 0.001s 32: 32: OK 29: Checking against /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 29/243 Test #32: pyDistGeom ............................. Passed 0.17 sec test 33 Start 33: graphmolcpTest 33: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolcpTest 33: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 33: Test timeout computed to be: 1500 33: 33: 33: 33: COPY 30/243 Test #33: graphmolcpTest ......................... Passed 0.01 sec test 34 Start 34: graphmolqueryTest 34: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolqueryTest 34: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 34: Test timeout computed to be: 1500 34: [20:40:07] ---------------------- Test1 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test2 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test3 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test4 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test5 34: [20:40:07] Done! 34: [20:40:07] 34: 34: **** 34: Pre-condition Violation 34: Can't expand empty query 34: Violation occurred on line 30 in file ./Code/GraphMol/QueryAtom.cpp 34: Failed Expression: dp_query 34: ---------- 34: Stacktrace: 34: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 34: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 34: 2# RDKit::QueryAtom::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 34: 3# 0x0000AAAAE8C47264 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolqueryTest 34: 4# 0x0000AAAAE8C407AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolqueryTest 34: 5# 0x0000FFFF98CF229C in /lib/aarch64-linux-gnu/libc.so.6 34: 6# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 34: 7# 0x0000AAAAE8C40870 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolqueryTest 34: ---------- 34: **** 34: 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test issue 2892580 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test github issue 53: query molecules not matching [R] 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test queries using qualifiers instead of == 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test Github issue 165: radicals not used in atom-atom matching 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test extra atom queries 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test extra bond queries 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test num heteroatom neighbor queries 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test atom type queries 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Test Github #2471: dummy atom queries are flagged as complex 34: [20:40:07] Done! 34: [20:40:07] ---------------------- Testing hasBondTypeQuery() and hasComplexBondTypeQuery() 34: [20:40:07] Done! 31/243 Test #34: graphmolqueryTest ...................... Passed 0.01 sec test 35 Start 35: graphmolMolOpsTest 35: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolMolOpsTest 35: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 35: Test timeout computed to be: 1500 29: All 191 tests passed 35: 1 1 2 35: 1 1 1 35: 2 1 0.75 35: path: 2 35: [20:40:07] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 10 ignored 35: [20:40:07] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 10 ignored 35: [20:40:07] Explicit valence for atom # 0 B, 5, is greater than permitted 35: [20:40:07] Explicit valence for atom # 1 C, 5, is greater than permitted 35: [20:40:07] Explicit valence for atom # 1 C, 5, is greater than permitted 35: [20:40:07] Explicit valence for atom # 1 C, 5, is greater than permitted 35: [20:40:07] Explicit valence for atom # 1 Si, 7, is greater than permitted 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_hypervalent.sdf... 35: smi: Cc1ccc(S(=O)(=O)/N=C2\CC(=N\C(C)(C)C)/C2=N\C(C)(C)C)cc1 12: .................. 12: ---------------------------------------------------------------------- 12: Ran 18 tests in 1.754s 12: 12: OK 35: [20:40:07] non-ring atom 0 marked aromatic 35: [20:40:07] non-ring atom 0 marked aromatic 35: [20:40:07] Conflicting single bond directions around double bond at index 17. 35: [20:40:07] BondStereo set to STEREONONE and single bond directions set to NONE. 35: starting ring finding 35: done 35: starting ring finding 35: done 35: starting ring finding 35: done 35: 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 35: starting sanitization 35: done 35: starting sanitization 35: done 35: starting ring finding 35: done 35: starting ring finding 35: done 35: smiles: CC[C@]1(C(=O)c([nH])n)CC[C@](C)(O)CC1 35: [20:40:07] WARNING: not removing hydrogen atom with dummy atom neighbors 35: ------------------------------- 35: [20:40:07] Explicit valence for atom # 0 N, 4, is greater than permitted 35: [20:40:07] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 35: [20:40:07] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 35: [20:40:07] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 35: [20:40:07] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 35: [20:40:07] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 35: [20:40:07] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 35: [20:40:07] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 35: [20:40:07] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 35: 32/243 Test #12: pyBV ................................... Passed 1.96 sec test 36 Start 36: graphmoltestChirality 36: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmoltestChirality 36: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 36: Test timeout computed to be: 1500 35: [20:40:07] WARNING: not removing hydrogen atom with dummy atom neighbors 36: -------------------------- 36: -------------------------- 36: C/C=C/C(C)Cl 36: [20:40:07] Conflicting single bond directions around double bond at index 2. 36: [20:40:07] BondStereo set to STEREONONE and single bond directions set to NONE. 36: [20:40:07] Conflicting single bond directions around double bond at index 4. 36: [20:40:07] BondStereo set to STEREONONE and single bond directions set to NONE. 36: [20:40:07] Conflicting single bond directions around double bond at index 15. 36: [20:40:07] BondStereo set to STEREONONE and single bond directions set to NONE. 36: [20:40:07] Conflicting single bond directions around double bond at index 2. 36: [20:40:07] BondStereo set to STEREONONE and single bond directions set to NONE. 36: [20:40:07] Conflicting single bond directions around double bond at index 1. 36: [20:40:07] BondStereo set to STEREONONE and single bond directions set to NONE. 36: -------------------------------------------------- 33/243 Test #36: graphmoltestChirality .................. Passed 0.05 sec test 37 Start 37: graphmoltestPickler 37: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmoltestPickler 37: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 37: Test timeout computed to be: 1500 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing String Pickle Roundtrips. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing reading existing pickle file (v2). 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing combining molecules using pickles. 37: Atoms: 37: 0 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 37: 1 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 37: 2 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 37: 3 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 37: 4 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 37: 5 8 O chg: 0 deg: 2 exp: 2 imp: 0 hyb: SP3 37: 6 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 37: Bonds: 37: 0 0->1 order: 1 37: 1 1->2 order: 1 37: 2 2->0 order: 1 37: 3 3->4 order: 1 37: 4 4->5 order: 1 37: 5 5->6 order: 1 37: 6 6->3 order: 1 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing Issue164: Roundtrip Pickle Failure. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing Issue219: Pickle Failure with Conformations. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing Issue220: Pickle problems with bond stereochemistry. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing query serialization. 37: [20:40:07] C=[$(C=O)] 37: [20:40:07] S(=O)(=O)-[C&H2][F,Br,I,Cl] S(=O)(=O)-[C&H2][F,Br,I,Cl] 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing radical handling in pickles. 37: [20:40:07] done 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing sf.net issue 2788233. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing sf.net issue 3202580. 37: mass! 13.0034 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing sf.net issue 3316407. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing sf.net issue 3496759. 37: smi match: *C *C 37: smi match: **=* **=* 37: smi match: [N-]=[N+]=NC=O [N-]=[N+]=NC=O 37: smi match: *OS(=O)OC *OS(=O)OC 37: smi match: *S(=O)(=O)OC *S(=O)(=O)OC 37: smi match: O=COC=O O=COC=O 37: smi match: OO OO 37: smi match: O=COc1c(F)c(F)c(F)c(F)c1F O=COc1c(F)c(F)c(F)c(F)c1F 37: smi match: O=COc1ccc(N(=O)=O)cc1 O=COc1ccc(N(=O)=O)cc1 37: smi match: nnnOC=O nnnOC=O 37: smi match: *=C=N *=C=N 37: smi match: OS(=O)(=O)C(F)(F)F OS(=O)(=O)C(F)(F)F 37: smi match: SP(S)=S SP(S)=S 37: smi match: NP(N)(N)=O NP(N)(N)=O 37: smi match: cN=[N+]=[N-] cN=[N+]=[N-] 37: smi match: *CC=O *CC=O 37: smi match: NNC=O NNC=O 37: smi match: * * 37: smi match: C=P C=P 37: smi match: CC(=N)Cl CC(=N)Cl 37: smi match: N=O N=O 37: smi match: ** ** 37: smi match: N=C=N N=C=N 37: smi match: [C-]#[NH+] [C-]#[NH+] 37: smi match: O=CON(C=O)C=O O=CON(C=O)C=O 37: smi match: N#CC[OH] N#CC[OH] 37: smi match: N#CC=O N#CC=O 37: smi match: N#CS(=O)=O N#CS(=O)=O 37: smi match: CCOP(=O)(C#N)OCC CCOP(=O)(C#N)OCC 37: smi match: N#CN=N N#CN=N 37: smi match: N=NCC=O N=NCC=O 37: smi match: CCCCCCC CCCCCCC 37: smi match: OCCOCCO OCCOCCO 37: smi match: SS SS 37: smi match: [SH] [SH] 37: smi match: *1CC1 *1CC1 37: smi match: [OH]ccc([OH])c[OH] [OH]ccc([OH])c[OH] 37: smi match: [OH]cc([OH])c[OH] [OH]cc([OH])c[OH] 37: smi match: NC(=S)N=N NC(=S)N=N 37: smi match: N#CS N#CS 37: smi match: cC[N+] cC[N+] 37: smi match: C*C=S C*C=S 37: smi match: N[CH2]C#N N[CH2]C#N 37: smi match: O=C1CCO1 O=C1CCO1 37: smi match: O=P([OH])OP(=O)[OH] O=P([OH])OP(=O)[OH] 37: smi match: O=C1CCN1 O=C1CCN1 37: smi match: O=C1C~CC(=O)C~C1 O=C1C~CC(=O)C~C1 37: smi match: C=CC=CC=CC=C C=CC=CC=CC=C 37: smi match: C1CCC(OC2CCC3CCCCC3C2)OC1 C1CCC(OC2CCC3CCCCC3C2)OC1 37: smi match: O=C1NCC2CCCCC21 O=C1NCC2CCCCC21 37: smi match: O=C1CCCC(=O)N1 O=C1CCCC(=O)N1 37: smi match: C1CCC(C2CCCO2)OC1 C1CCC(C2CCCO2)OC1 37: smi match: [OH]C1Cc2c([OH])cc([OH])cc2OC1c1ccc([OH])c([OH])c1 [OH]C1Cc2c([OH])cc([OH])cc2OC1c1ccc([OH])c([OH])c1 37: smi match: C1CC2CCC(O1)O2 C1CC2CCC(O1)O2 37: smi match: cN(=O)~O cN(=O)~O 37: smi match: *[CH2]N1C(=O)CCC1=O *[CH2]N1C(=O)CCC1=O 37: smi match: N~NC=O N~NC=O 37: smi match: *=N~C *=N~C 37: smi match: CO*(=O)=O CO*(=O)=O 37: smi match: * * 37: smi match: * * 37: smi match: *C=C *C=C 37: smi match: N#CS N#CS 37: smi match: *C=S *C=S 37: smi match: *N *N 37: smi match: *C(=C)C=O *C(=C)C=O 37: smi match: *C#C *C#C 37: smi match: N#CCO N#CCO 37: smi match: O=N(=O)CCO O=N(=O)CCO 37: smi match: N=CS N=CS 37: smi match: O=CNC(O)C=O O=CNC(O)C=O 37: smi match: C=C(C=O)C=O C=C(C=O)C=O 37: smi match: N=CC=O N=CC=O 37: smi match: *C(C=O)C=O *C(C=O)C=O 37: smi match: *C(C=O)=C(*)C=O *C(C=O)=C(*)C=O 37: smi match: O=CC=CC=O O=CC=CC=O 37: smi match: O=CN(O)C=O O=CN(O)C=O 37: smi match: O=CN(S)C=O O=CN(S)C=O 37: smi match: O=CNC=O O=CNC=O 37: smi match: O=CNN=O O=CNN=O 37: smi match: O=CNNC=O O=CNNC=O 37: smi match: O=CNOC=O O=CNOC=O 37: smi match: O=CS O=CS 37: smi match: O=CSC=S O=CSC=S 37: smi match: S=CS S=CS 37: smi match: C=O C=O 37: smi match: *C=N *C=N 37: smi match: CCCCCCC CCCCCCC 37: smi match: CN=O CN=O 37: smi match: CS(=O)(=O)O CS(=O)(=O)O 37: smi match: O=C1CCO1 O=C1CCO1 37: smi match: C=C(S)[SH]=O C=C(S)[SH]=O 37: smi match: C=CCO C=CCO 37: smi match: C=CC=N C=CC=N 37: smi match: C=CC=O C=CC=O 37: smi match: C=CC(=O)C=C C=CC(=O)C=C 37: smi match: C=CC=S C=CC=S 37: smi match: C=CC(=S)S C=CC(=S)S 37: smi match: *C=C(*)C=C *C=C(*)C=C 37: smi match: C=CC=N C=CC=N 37: smi match: *N(*)C=C *N(*)C=C 37: smi match: C=CN(=O)=O C=CN(=O)=O 37: smi match: C=CN(O)=O C=CN(O)=O 37: smi match: C=CO C=CO 37: smi match: C=COC=O C=COC=O 37: smi match: C=CS C=CS 37: smi match: C=C[SH](=O)=O C=C[SH](=O)=O 37: smi match: C=NCO C=NCO 37: smi match: C=NC=O C=NC=O 37: smi match: C=NN C=NN 37: smi match: C=NN=C C=NN=C 37: smi match: C=NO C=NO 37: smi match: C=NOC=O C=NOC=O 37: smi match: C=N=O C=N=O 37: smi match: N#CS N#CS 37: smi match: *CN=O *CN=O 37: smi match: NCN NCN 37: smi match: ON=CCN=O ON=CCN=O 37: smi match: NC(S)=N[SH](=O)=O NC(S)=N[SH](=O)=O 37: smi match: N=C(N)S N=C(N)S 37: smi match: NC(=O)Oc1ccccc1 NC(=O)Oc1ccccc1 37: smi match: NC=S NC=S 37: smi match: NC(N)=S NC(N)=S 37: smi match: C=CN C=CN 37: smi match: NOC=O NOC=O 37: smi match: C1CN1 C1CN1 37: smi match: O=C1NNNN1 O=C1NNNN1 37: smi match: N=C(N)C(=N)N N=C(N)C(=N)N 37: smi match: N=C(N)O N=C(N)O 37: smi match: N=C(N)C(=N)S N=C(N)C(=N)S 37: smi match: *C=N *C=N 37: smi match: N=CC=O N=CC=O 37: smi match: N=CS N=CS 37: smi match: N=C=N N=C=N 37: smi match: N=C=O N=C=O 37: smi match: N=C=S N=C=S 37: smi match: NOC(=O)O NOC(=O)O 37: smi match: *C(O)=S *C(O)=S 37: smi match: C=CO C=CO 37: smi match: ON=CC=NO ON=CC=NO 37: smi match: *C[SH](=O)=O *C[SH](=O)=O 37: smi match: OS(=O)=O OS(=O)=O 37: smi match: N#CS N#CS 37: smi match: C=C(S)S C=C(S)S 37: smi match: N=C(N)S N=C(N)S 37: smi match: N=C(S)S N=C(S)S 37: smi match: NC(=S)S NC(=S)S 37: smi match: O=CNS O=CNS 37: smi match: S S 37: smi match: [SiH4] [SiH4] 37: smi match: NS NS 37: smi match: NCN NCN 37: smi match: cC(c)(O)O cC(c)(O)O 37: smi match: *C(c)O *C(c)O 37: smi match: C=CS(c)(=O)=O C=CS(c)(=O)=O 37: smi match: cS(=O)(=O)O cS(=O)(=O)O 37: smi match: *c1ccccn1=O *c1ccccn1=O 37: smi match: *c1ccccn1 *c1ccccn1 37: smi match: *c1nccccn1 *c1nccccn1 37: smi match: C1COCOC1 C1COCOC1 37: smi match: C=S C=S 37: smi match: c=S c=S 37: smi match: S=CS S=CS 37: smi match: C=CN(=O)=O C=CN(=O)=O 37: smi match: C=CN(=O)O C=CN(=O)O 37: smi match: N=CC=O N=CC=O 37: smi match: C=CS C=CS 37: smi match: SC(S)(S)S SC(S)(S)S 37: smi match: OS(O)(O)O OS(O)(O)O 37: smi match: O=N(=O)C[SH](=O)=O O=N(=O)C[SH](=O)=O 37: smi match: O=N(O)C[SH](=O)=O O=N(O)C[SH](=O)=O 37: smi match: N#CS N#CS 37: smi match: C=NO C=NO 37: smi match: C=N[SH]=N C=N[SH]=N 37: smi match: O=C(S)S O=C(S)S 37: smi match: N=C(S)S N=C(S)S 37: smi match: N=C(=N)S N=C(=N)S 37: smi match: O=N=O O=N=O 37: smi match: O=NO O=NO 37: smi match: ONO ONO 37: smi match: C1SCS1 C1SCS1 37: smi match: N=C=S N=C=S 37: smi match: N=C=N N=C=N 37: smi match: C1N=N1 C1N=N1 37: smi match: *CS *CS 37: smi match: SC(S)=C(S)S SC(S)=C(S)S 37: smi match: N=CC=NO N=CC=NO 37: smi match: N#CCC#N N#CCC#N 37: smi match: CON=O CON=O 37: smi match: C=CN C=CN 37: smi match: C=N[SH](=O)=O C=N[SH](=O)=O 37: smi match: NN=O NN=O 37: smi match: NC(=O)S NC(=O)S 37: smi match: N#CS N#CS 37: smi match: NC(=O)C(N)=O NC(=O)C(N)=O 37: smi match: c=N c=N 37: smi match: C1COCO1 C1COCO1 37: smi match: C=NN[SH](=O)=O C=NN[SH](=O)=O 37: smi match: O=CC=O O=CC=O 37: smi match: O=CNOC=O O=CNOC=O 37: smi match: O=C1C=CC(=O)C=C1 O=C1C=CC(=O)C=C1 37: smi match: ONO ONO 37: smi match: ON(~O)~O ON(~O)~O 37: smi match: OC1COC(O)C1 OC1COC(O)C1 37: smi match: OC1CCOC1O OC1CCOC1O 37: smi match: OC1CCOC(O)C1 OC1CCOC(O)C1 37: smi match: N=[N+]=N N=[N+]=N 37: smi match: N#CN N#CN 37: smi match: C=NN=C C=NN=C 37: smi match: *CCN(C)C *CCN(C)C 37: smi match: CNN CNN 37: smi match: *CC *CC 37: smi match: OCS OCS 37: smi match: C1NO1 C1NO1 37: smi match: COS(C)(=O)=O COS(C)(=O)=O 37: smi match: C1CO1 C1CO1 37: smi match: *c1-c-c-ccN1 *c1-c-c-ccN1 37: smi match: *C(*)=C *C(*)=C 37: smi match: N#[NH+] N#[NH+] 37: smi match: C#NO C#NO 37: smi match: OOO OOO 37: smi match: OO OO 37: smi match: O~Cl(~O)~O O~Cl(~O)~O 37: smi match: O~Cl(~O)(~O)~O O~Cl(~O)(~O)~O 37: smi match: [OH]~C(~O)~O [OH]~C(~O)~O 37: smi match: *N *N 37: smi match: *P *P 37: smi match: *S *S 37: smi match: *C(*)(*)C=C *C(*)(*)C=C 37: smi match: *C(*)(*)C=C *C(*)(*)C=C 37: smi match: *C(*)C=C *C(*)C=C 37: smi match: *CC=C *CC=C 37: smi match: CN=C=O CN=C=O 37: smi match: CN=C=S CN=C=S 37: smi match: *C=O *C=O 37: smi match: N=N N=N 37: smi match: SS SS 37: smi match: O=C1CCNC(=O)O1 O=C1CCNC(=O)O1 37: smi match: CSC(C)=N CSC(C)=N 37: smi match: COC(C)=N COC(C)=N 37: smi match: C=C=C C=C=C 37: smi match: *C(=O)OC=O *C(=O)OC=O 37: smi match: C=CC#N C=CC#N 37: smi match: C=CC=O C=CC=O 37: smi match: CC=CC(C)=O CC=CC(C)=O 37: smi match: CC=CC(=O)OCC CC=CC(=O)OCC 37: smi match: C#CC#N C#CC#N 37: smi match: C#CC=O C#CC=O 37: smi match: C#CC(=O)OCC C#CC(=O)OCC 37: smi match: C#CC=O C#CC=O 37: smi match: *C(=O)C#C *C(=O)C#C 37: smi match: C=CC=O C=CC=O 37: smi match: *C(*)(*)O *C(*)(*)O 37: smi match: COS(O)(=O)=O COS(O)(=O)=O 37: smi match: CS(=O)(=O)[O-] CS(=O)(=O)[O-] 37: smi match: NS(=O)(=O)[O-] NS(=O)(=O)[O-] 37: smi match: *C(*)(*)C=O *C(*)(*)C=O 37: smi match: *C(*)(*)C=O *C(*)(*)C=O 37: smi match: *C(*)C=O *C(*)C=O 37: smi match: *CC=O *CC=O 37: smi match: *C(*)(*)[SH](=O)=O *C(*)(*)[SH](=O)=O 37: smi match: *C(*)(*)[SH](=O)=O *C(*)(*)[SH](=O)=O 37: smi match: *C(*)[SH](=O)=O *C(*)[SH](=O)=O 37: smi match: *C[SH](=O)=O *C[SH](=O)=O 37: smi match: * * 37: smi match: *1CC1 *1CC1 37: smi match: O=COC=O O=COC=O 37: smi match: N=C=O N=C=O 37: smi match: N=C=S N=C=S 37: smi match: O~O O~O 37: smi match: N~[SiH4] N~[SiH4] 37: smi match: *P *P 37: smi match: C=N=N C=N=N 37: smi match: *N#[NH+] *N#[NH+] 37: smi match: *S* *S* 37: smi match: ** ** 37: smi match: *CC* *CC* 37: smi match: *O[SiH3] *O[SiH3] 37: smi match: *OS(*)~O *OS(*)~O 37: smi match: N~N~O N~N~O 37: smi match: *N(~O)(~O)~O *N(~O)(~O)~O 37: smi match: *[N+](=C)[O-] *[N+](=C)[O-] 37: smi match: * * 37: smi match: *C(*)NCN(*)* *C(*)NCN(*)* 37: smi match: *OCC#N *OCC#N 37: smi match: **C=C **C=C 37: smi match: C=C[O-] C=C[O-] 37: smi match: C=CO C=CO 37: smi match: * * 37: smi match: O=CON1C(=O)CCC1=O O=CON1C(=O)CCC1=O 37: smi match: O=COn1ccnc1 O=COn1ccnc1 37: smi match: O=COc1c(F)c(F)c(F)c(F)c1F O=COc1c(F)c(F)c(F)c(F)c1F 37: smi match: CC(C)(C)S CC(C)(C)S 37: 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 37: smi match: [CH]=O [CH]=O 37: smi match: C~[CH2]~[CH2]~[CH2]~[CH2]~[CH2]~C C~[CH2]~[CH2]~[CH2]~[CH2]~[CH2]~C 37: smi match: SS SS 37: smi match: [SH] [SH] 37: smi match: *C* *C* 37: smi match: * * 37: smi match: C[nH3+] C[nH3+] 37: smi match: cC(=N)[NH2] cC(=N)[NH2] 37: smi match: O=CN[OH] O=CN[OH] 37: smi match: NN NN 37: smi match: * * 37: smi match: *OP(=O)O* *OP(=O)O* 37: smi match: * * 37: smi match: * * 37: smi match: * * 37: smi match: *N=C(*)* *N=C(*)* 37: smi match: *C(*)(*)C=O *C(*)(*)C=O 37: smi match: CSC=O CSC=O 37: smi match: * * 37: smi match: O=CCl O=CCl 37: smi match: *** *** 37: smi match: *C=O *C=O 37: smi match: C[OH] C[OH] 37: smi match: C[OH] C[OH] 37: smi match: C[OH] C[OH] 37: smi match: C[OH] C[OH] 37: smi match: C[CH]=O C[CH]=O 37: smi match: *=* *=* 37: smi match: *C *C 37: smi match: C#C C#C 37: smi match: *[CH]C=C *[CH]C=C 37: smi match: cCC(=O)[OH] cCC(=O)[OH] 37: smi match: *C(*)(*)C(=O)[OH] *C(*)(*)C(=O)[OH] 37: smi match: CC(=O)C(=O)[OH] CC(=O)C(=O)[OH] 37: smi match: C=CC(=O)[OH] C=CC(=O)[OH] 37: smi match: N#CC(=O)[OH] N#CC(=O)[OH] 37: smi match: O=C([OH])CN(~O)~O O=C([OH])CN(~O)~O 37: smi match: *N(*)C*=O *N(*)C*=O 37: smi match: O=*C[OH] O=*C[OH] 37: smi match: *=C*=O *=C*=O 37: smi match: *=CC#N *=CC#N 37: smi match: *C[OH] *C[OH] 37: smi match: ** ** 37: smi match: *C[OH] *C[OH] 37: smi match: *C(*)=O *C(*)=O 37: smi match: * * 37: smi match: *CC(=O)[OH] *CC(=O)[OH] 37: smi match: CC(=O)OC(C)=O CC(=O)OC(C)=O 37: smi match: *c *c 37: smi match: CN(C)c CN(C)c 37: smi match: c c 37: smi match: *c *c 37: smi match: *c *c 37: smi match: **:*cF **:*cF 37: smi match: cB([OH])[OH] cB([OH])[OH] 37: smi match: N~N~N N~N~N 37: smi match: *N=N* *N=N* 37: smi match: *CC[OH] *CC[OH] 37: smi match: *CC[OH] *CC[OH] 37: smi match: *=CCC(=O)[OH] *=CCC(=O)[OH] 37: smi match: O=C([OH])CC[OH] O=C([OH])CC[OH] 37: smi match: *CCC(=O)[OH] *CCC(=O)[OH] 37: smi match: CC(=O)CC(=O)[OH] CC(=O)CC(=O)[OH] 37: smi match: *OC(=O)CC(C)=O *OC(=O)CC(C)=O 37: smi match: *OC(*)=O *OC(*)=O 37: smi match: *C(=O)[OH] *C(=O)[OH] 37: smi match: O=C[OH] O=C[OH] 37: smi match: *OC(=O)O* *OC(=O)O* 37: smi match: * * 37: smi match: *OC(=O)Cl *OC(=O)Cl 37: smi match: *C#N *C#N 37: smi match: NCC(=O)NCC=O NCC(=O)NCC=O 37: smi match: SS SS 37: smi match: * * 37: smi match: *=* *=* 37: smi match: *=* *=* 37: smi match: *=* *=* 37: smi match: *=* *=* 37: smi match: C1CO1 C1CO1 37: smi match: *OC(*)=O *OC(*)=O 37: smi match: * * 37: smi match: *O*[OH] *O*[OH] 37: smi match: COC(C)(C)O COC(C)(C)O 37: smi match: *[OH] *[OH] 37: smi match: ** ** 37: smi match: C=N[NH2] C=N[NH2] 37: smi match: C=NC=O C=NC=O 37: smi match: * * 37: smi match: C#NC C#NC 37: smi match: CN=C=O CN=C=O 37: smi match: CN=C=S CN=C=S 37: smi match: *OC(*)(*)O* *OC(*)(*)O* 37: smi match: *C(*)=O *C(*)=O 37: smi match: C~C~C~C~C~C~C C~C~C~C~C~C~C 37: smi match: *~*=O *~*=O 37: smi match: *~*=O *~*=O 37: smi match: OC(=O)CC(=O)[OH] OC(=O)CC(=O)[OH] 37: smi match: * * 37: smi match: *C#N *C#N 37: smi match: *N(=O)~O *N(=O)~O 37: smi match: N N 37: smi match: OC(=O)C(O)=O OC(=O)C(O)=O 37: smi match: C=NO C=NO 37: smi match: O~O O~O 37: smi match: c[OH] c[OH] 37: smi match: O=P(~[OH])~O O=P(~[OH])~O 37: smi match: CO~P(=O)~O CO~P(=O)~O 37: smi match: O=P(~[OH])(~O)~O O=P(~[OH])(~O)~O 37: smi match: CO~P(=O)(~O)~O CO~P(=O)(~O)~O 37: smi match: O=P(~O)~O O=P(~O)~O 37: smi match: O=P(~O)(~O)~O O=P(~O)(~O)~O 37: smi match: C[NH2] C[NH2] 37: smi match: O~*1~**~*(~O)~**~1 O~*1~**~*(~O)~**~1 37: smi match: * * 37: smi match: *1~*~*~C2~C(~*~1)~*~*~C1~C3~*~*~*~C~3~*~*~C~2~1 *1~*~*~C2~C(~*~1)~*~*~C1~C3~*~*~*~C~3~*~*~C~2~1 37: smi match: CS(C)~O CS(C)~O 37: smi match: CS(C)(~O)~O CS(C)(~O)~O 37: smi match: CS(N)(~O)~O CS(N)(~O)~O 37: smi match: CS([OH])(~O)~O CS([OH])(~O)~O 37: smi match: COS(C)(~O)~O COS(C)(~O)~O 37: smi match: *S(C)(~O)~O *S(C)(~O)~O 37: smi match: CN(C)C CN(C)C 37: smi match: *c1nnc(=N)s1 *c1nnc(=N)s1 37: smi match: *C(*)=S *C(*)=S 37: smi match: *OC(*)=S *OC(*)=S 37: smi match: * * 37: smi match: C[SH] C[SH] 37: smi match: c[SH] c[SH] 37: smi match: NC(N)=S NC(N)=S 37: smi match: * * 37: smi match: ***** ***** 37: smi match: NC(N)=O NC(N)=O 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing sf.net issue 280. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing sf.net issue 285. 37: [20:40:07] done 37: [20:40:07] done 37: [20:40:07] done 37: [20:40:07] done 37: [20:40:07] done 37: [20:40:07] done 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing Github2441: Add RDProps interface to Conformers. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing Issue2510: Pickle Confs as double. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing Github #2465: Negative atom-map numbers cause depickling to fail. 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing loading pickled mols with conformers 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing conformer reading/writing options 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing property reading options 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing property reading options 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing boost::serialization integration 37: [20:40:07] done 37: [20:40:07] ------------------------------------- 37: [20:40:07] Testing github issue 6036 34/243 Test #37: graphmoltestPickler .................... Passed 0.13 sec test 38 Start 38: graphmoltestPicklerGlobalSetting 38: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmoltestPicklerGlobalSetting 38: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 38: Test timeout computed to be: 1500 35: [20:40:07] Maximum BFS search size exceeded. 35: This is likely due to a highly symmetric fused ring system. 38: [20:40:07] done 35/243 Test #38: graphmoltestPicklerGlobalSetting ....... Passed 0.01 sec test 39 Start 39: graphmolIterTest 39: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolIterTest 39: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 39: Test timeout computed to be: 1500 36/243 Test #39: graphmolIterTest ....................... Passed 0.01 sec test 40 Start 40: hanoiTest 40: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/hanoiTest 40: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 40: Test timeout computed to be: 1500 40: [20:40:07] Testing the hanoi sort 40: [20:40:07] populating vectors 40: [20:40:07] sorting (hanoi sort) vectors 35: [20:40:07] Maximum BFS search size exceeded. 35: This is likely due to a highly symmetric fused ring system. 35: F/C=C/Cl 35: [H]/C(F)=C(/[H])Cl 35: F/C=C/Cl 35: F/C=C/Cl 35: C/C(F)=C(/C)Cl 35: [20:40:07] ----------------------- 35: Testing isRingFused 37/243 Test #35: graphmolMolOpsTest ..................... Passed 0.52 sec test 41 Start 41: graphmolMemTest1 41: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolMemTest1 41: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 41: Test timeout computed to be: 1500 38/243 Test #41: graphmolMemTest1 ....................... Passed 0.01 sec test 42 Start 42: resMolSupplierTest 42: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/resMolSupplierTest 42: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 42: Test timeout computed to be: 1500 29: Checking against /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 29: All 191 tests passed 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_dative.smi... 40: [20:40:08] done: 500000 40: [20:40:08] Done 40: [20:40:08] Testing hanoi with a functor. 40: [20:40:08] Done 40: [20:40:08] Testing basic partition refinement. 40: [20:40:08] Done 40: [20:40:08] Testing partition refinement with neighbors. 40: [20:40:08] Done 40: [20:40:08] testing canonicalization via tie breaking. 40: [20:40:08] Done 40: [20:40:08] testing canonicalization using the wrapper. 40: [20:40:08] Done 40: [20:40:08] testing some specific ordering problems 40: [20:40:08] Finished 40: [20:40:08] testing chiral invariants. 40: [20:40:08] Finished 40: [20:40:08] testing unique ranks in w.r.t. renumbering. 40: [20:40:08] Finished 40: [20:40:08] testing mol fragments. 40: [20:40:08] Finished 40: [20:40:08] testing protein round-tripping. 40: [20:40:09] Finished 40: [20:40:09] testing stability w.r.t. renumbering. 40: [20:40:09] Finished 40: [20:40:09] testing smiles round-tripping. 40: [20:40:09] Finished 40: [20:40:09] testing github #1567: Non-canonical result from MolFragmentToSmiles() 40: [20:40:09] Finished 39/243 Test #40: hanoiTest .............................. Passed 1.81 sec test 43 Start 43: molBundleTest 43: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/molBundleTest 43: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 43: Test timeout computed to be: 1500 40/243 Test #43: molBundleTest .......................... Passed 0.01 sec test 44 Start 44: testSGroup 44: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/testSGroup 44: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 44: Test timeout computed to be: 1500 41/243 Test #44: testSGroup ............................. Passed 0.02 sec test 45 Start 45: test-valgrind 45: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/test-valgrind 45: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 45: Test timeout computed to be: 1500 42/243 Test #45: test-valgrind .......................... Passed 0.01 sec test 46 Start 46: graphmolTestsCatch 46: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 46: Test timeout computed to be: 1500 46: Randomness seeded to: 439507666 46: [20:40:09] WARNING: not removing hydrogen atom without neighbors 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] Explicit valence for atom # 1 N, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 N, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 N, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 N, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 2 O, 3, is greater than permitted 46: [20:40:09] Explicit valence for atom # 2 O, 3, is greater than permitted 46: [20:40:09] non-ring atom 2 marked aromatic 46: [20:40:09] non-ring atom 2 marked aromatic 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 1 2 3 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 1 2 3 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 0 1 2 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 0 1 2 46: [20:40:09] Explicit valence for atom # 1 O, 3, is greater than permitted 46: [20:40:09] Explicit valence for atom # 4 F, 2, is greater than permitted 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 6 7 8 46: [20:40:09] Explicit valence for atom # 1 C, 5, is greater than permitted 46: [20:40:09] WARNING: not removing hydrogen atom with dummy atom neighbors 46: [20:40:09] WARNING: not removing hydrogen atom with dummy atom neighbors 46: [20:40:09] WARNING: not removing hydrogen atom with wedged bond 46: [20:40:09] WARNING: not removing hydrogen atom without neighbors 46: [20:40:09] WARNING: not removing hydrogen atom without neighbors 46: [20:40:09] WARNING: not removing hydrogen atom without neighbors 46: [20:40:09] WARNING: not removing hydrogen atom without neighbors 46: [20:40:09] Unreasonable formal charge on atom # 0. 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: no atom 46: Violation occurred on line 181 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: at 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C1D8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: no owner 46: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 46: Failed Expression: dp_mol 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C250 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: atom not associated with this molecule 46: Violation occurred on line 182 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: &at->getOwningMol() == this 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: no atom 46: Violation occurred on line 364 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: at 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C3A0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: no owner 46: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 46: Failed Expression: dp_mol 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C41C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: atom not associated with this molecule 46: Violation occurred on line 365 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: &at->getOwningMol() == this 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C4A4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: no atom 46: Violation occurred on line 371 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: at 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4CB54 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: no owner 46: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 46: Failed Expression: dp_mol 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C5DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: atom not associated with this molecule 46: Violation occurred on line 372 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: &at->getOwningMol() == this 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C664 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: null atom passed in 46: Violation occurred on line 386 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: atom_pin 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::addAtom(RDKit::Atom*, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4CB38 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: cannot take ownership of an atom which already has an owner 46: Violation occurred on line 387 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: !takeOwnership || !atom_pin->hasOwningMol() || &atom_pin->getOwningMol() == this 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::addAtom(RDKit::Atom*, bool, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4C7D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: cannot take ownership of an bond which already has an owner 46: Violation occurred on line 412 in file ./Code/GraphMol/ROMol.cpp 46: Failed Expression: !takeOwnership || !bond_pin->hasOwningMol() || &bond_pin->getOwningMol() == this 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::ROMol::addBond(RDKit::Bond*, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A4CB18 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] WARNING: not removing hydrogen atom without neighbors 46: [20:40:09] Explicit valence for atom # 1 F greater than permitted 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: plain atoms have no Query 46: Violation occurred on line 697 in file ./Code/GraphMol/Atom.cpp 46: Failed Expression: 0 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::Atom::setQuery(Queries::Query*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A0030C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: plain atoms have no Query 46: Violation occurred on line 702 in file ./Code/GraphMol/Atom.cpp 46: Failed Expression: 0 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::Atom::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC2A00398 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: plain bonds have no Query 46: Violation occurred on line 209 in file ./Code/GraphMol/Bond.cpp 46: Failed Expression: 0 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::Bond::setQuery(Queries::Query*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC29FFF6C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] 46: 46: **** 46: Pre-condition Violation 46: plain bonds have no query 46: Violation occurred on line 230 in file ./Code/GraphMol/Bond.cpp 46: Failed Expression: 0 46: ---------- 46: Stacktrace: 46: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 46: 2# RDKit::Bond::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 46: 3# 0x0000AAAAC29FFFF8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 4# 0x0000AAAAC2A9C4EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 5# 0x0000AAAAC2A9CEA0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 6# 0x0000AAAAC2A9D2D4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 7# 0x0000AAAAC2A70818 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 8# 0x0000AAAAC2A70D4C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 9# 0x0000AAAAC29EEC8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: 10# 0x0000FFFFA0F5229C in /lib/aarch64-linux-gnu/libc.so.6 46: 11# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 46: 12# 0x0000AAAAC29EED70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolTestsCatch 46: ---------- 46: **** 46: 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 46: [20:40:09] Unusual charge on atom 0 number of radical electrons set to zero 46: [20:40:09] Unusual charge on atom 0 number of radical electrons set to zero 46: [20:40:09] Unusual charge on atom 0 number of radical electrons set to zero 46: [20:40:09] non-ring atom 0 marked aromatic 46: [20:40:09] non-ring atom 0 marked aromatic 46: [20:40:09] Explicit valence for atom # 1 C, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 9 C, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 3 N, 4, is greater than permitted 46: [20:40:09] Explicit valence for atom # 15 C, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 11 C, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 9 C, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 9 C, 5, is greater than permitted 46: [20:40:09] Explicit valence for atom # 9 C, 6, is greater than permitted 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 7 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 3 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 3 7 46: [20:40:09] Can't kekulize mol. Unkekulized atoms: 3 7 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 46: [20:40:09] Explicit valence for atom # 1 O, 3, is greater than permitted 46: [20:40:09] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 46: [20:40:09] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 46: [20:40:09] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 46: [20:40:09] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 46: [20:40:09] Invalid value for molAttachPoint: 4 on atom 1. Not expanding this atttachment point. 46: [20:40:09] Invalid value for _fromAttachPoint: -1 on atom 0. Not collapsing this atom 46: [20:40:09] Invalid value for _fromAttachPoint: 4 on atom 0. Not collapsing this atom 46: [20:40:09] non-ring atom 0 marked aromatic 46: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 46: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 46: [20:40:09] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 46: [20:40:09] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 46: [20:40:09] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 46: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 46: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 46: [20:40:09] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 46: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 46: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 46: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 46: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 46: [20:40:09] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 46: [20:40:09] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 46: [20:40:09] Explicit valence for atom # 0 Al, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 Al, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 Si, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 Si, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 P, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 P, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 P, 7, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 P, 7, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 As, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 As, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 As, 7, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 As, 7, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 Sb, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 Sb, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 Sb, 7, is greater than permitted 46: [20:40:09] Explicit valence for atom # 0 Sb, 7, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 Bi, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 Bi, 6, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 Bi, 8, is greater than permitted 46: [20:40:09] Explicit valence for atom # 1 Bi, 8, is greater than permitted 46: =============================================================================== 46: All tests passed (4501 assertions in 110 test cases) 46: 43/243 Test #46: graphmolTestsCatch ..................... Passed 0.12 sec test 47 Start 47: graphmolOrganometallicsCatch 47: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolOrganometallicsCatch 47: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 47: Test timeout computed to be: 1500 47: Randomness seeded to: 2038129307 47: =============================================================================== 47: All tests passed (62 assertions in 6 test cases) 47: 44/243 Test #47: graphmolOrganometallicsCatch ........... Passed 0.03 sec test 48 Start 48: graphmolSGroupCatch 48: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolSGroupCatch 48: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 48: Test timeout computed to be: 1500 48: Randomness seeded to: 2954936338 48: =============================================================================== 48: All tests passed (136 assertions in 8 test cases) 48: 45/243 Test #48: graphmolSGroupCatch .................... Passed 0.02 sec test 49 Start 49: graphmolAdjustQueryCatch 49: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/graphmolAdjustQueryCatch 49: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 49: Test timeout computed to be: 1500 46/243 Test #42: resMolSupplierTest ..................... Passed 1.84 sec test 50 Start 50: chiralityTestsCatch 50: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/chiralityTestsCatch 50: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 50: Test timeout computed to be: 1500 49: Randomness seeded to: 155228544 49: =============================================================================== 49: All tests passed (332 assertions in 12 test cases) 49: 47/243 Test #49: graphmolAdjustQueryCatch ............... Passed 0.03 sec test 51 Start 51: canonTestsCatch 51: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/canonTestsCatch 51: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 51: Test timeout computed to be: 1500 50: Randomness seeded to: 456391807 50: [20:40:09] unable to set wavy bonds for double bonds: 3 50: [20:40:09] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 50: [20:40:09] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 50: [20:40:09] Warning: ambiguous stereochemistry - zero-length (or near zero-length) bond - at atom 1 ignored. 50: [20:40:09] Warning: ambiguous stereochemistry - zero-length (or near zero-length) bond - at atom 1 ignored. 50: [20:40:09] Warning: ambiguous stereochemistry - overlapping neighbors - at atom 2 ignored 50: =============================================================================== 50: All tests passed (2350 assertions in 81 test cases) 50: 48/243 Test #50: chiralityTestsCatch .................... Passed 0.06 sec test 52 Start 52: moliteratorTestsCatch 52: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/moliteratorTestsCatch 52: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 52: Test timeout computed to be: 1500 52: Randomness seeded to: 250314665 52: =============================================================================== 52: All tests passed (14 assertions in 4 test cases) 52: 49/243 Test #52: moliteratorTestsCatch .................. Passed 0.01 sec test 53 Start 53: queryTestsCatch 53: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/queryTestsCatch 53: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 53: Test timeout computed to be: 1500 53: Randomness seeded to: 4219962716 53: =============================================================================== 53: All tests passed (10 assertions in 1 test case) 53: 50/243 Test #53: queryTestsCatch ........................ Passed 0.01 sec test 54 Start 54: molbundleTestsCatch 54: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/molbundleTestsCatch 54: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 54: Test timeout computed to be: 1500 54: Randomness seeded to: 686832437 54: =============================================================================== 54: All tests passed (6 assertions in 1 test case) 54: 51/243 Test #54: molbundleTestsCatch .................... Passed 0.01 sec test 55 Start 55: pickleTestsCatch 55: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/pickleTestsCatch 55: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 55: Test timeout computed to be: 1500 55: Randomness seeded to: 864412495 55: =============================================================================== 55: All tests passed (45 assertions in 4 test cases) 55: 52/243 Test #55: pickleTestsCatch ....................... Passed 0.02 sec test 56 Start 56: tableTestsCatch 56: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/tableTestsCatch 56: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 56: Test timeout computed to be: 1500 56: Randomness seeded to: 1176287636 56: =============================================================================== 56: All tests passed (7 assertions in 2 test cases) 56: 53/243 Test #56: tableTestsCatch ........................ Passed 0.01 sec test 57 Start 57: molopsTestsCatch 57: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/molopsTestsCatch 57: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol 57: Test timeout computed to be: 1500 57: Randomness seeded to: 4008427817 57: =============================================================================== 57: All tests passed (230 assertions in 7 test cases) 57: 54/243 Test #57: molopsTestsCatch ....................... Passed 0.02 sec test 58 Start 58: smiTest1 58: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTest1 58: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 58: Test timeout computed to be: 1500 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] WARNING: not removing hydrogen atom without neighbors 58: [20:40:09] Invalid chiral specification on atom 0 58: [20:40:09] Invalid chiral specification on atom 0 58: [20:40:09] Invalid chiral specification on atom 0 58: [20:40:09] Invalid chiral specification on atom 0 58: [20:40:09] Invalid chiral specification on atom 0 58: [20:40:09] SMILES Parse Error: unclosed ring for input: 'C1.C11.C' 58: [20:40:09] SMILES Parse Error: unclosed ring for input: 'C1C.CC11CCC' 58: --C1CCC2(CC1)CCCCC2CCC1CCCC1 58: smi: ClC1CCCCC1 58: smi: ClC1CCCCC1 58: smi: ClC1CCCCC1Br 58: smi: c1ccccc1 58: smi: c1ccncc1 58: smi: c1cc[nH]c1 58: smi: c1cc[nH]c1 58: smi: c1cc[pH]c1 58: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 58: [20:40:09] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 58: CbC(aC)aC 58: CaC(bC)aC 58: CbC(bC)aC 58: O.C 58: 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 58: [20:40:09] SMILES Parse Error: syntax error while parsing: c%()ccccc%() 58: [20:40:09] SMILES Parse Error: check for mistakes around position 4: 58: [20:40:09] c%()ccccc%() 58: [20:40:09] ~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'c%()ccccc%()' for input: 'c%()ccccc%()' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 58: [20:40:09] SMILES Parse Error: check for mistakes around position 9: 58: [20:40:09] c%(100000)ccccc%(100000) 58: [20:40:09] ~~~~~~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 58: [20:40:09] SMILES Parse Error: duplicated ring closure 1 bonds atom 2 to itself for input: 'C1CC111' 58: [20:40:09] SMILES Parse Error: ring closure 1 duplicates bond between atom 0 and atom 1 for input: 'C1C1' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 58: [20:40:09] SMILES Parse Error: check for mistakes around position 14: 58: [20:40:09] COc(c1)cccc1C# 58: [20:40:09] ~~~~~~~~~~~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 14: 58: [20:40:09] COc(c1)cccc1C# 58: [20:40:09] ~~~~~~~~~~~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 58: [20:40:09] SMILES Parse Error: check for mistakes around position 14: 58: [20:40:09] COc(c1)cccc1C# 58: [20:40:09] ~~~~~~~~~~~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 14: 58: [20:40:09] COc(c1)cccc1C# 58: [20:40:09] ~~~~~~~~~~~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 58: [20:40:09] SMILES Parse Error: check for mistakes around position 14: 58: [20:40:09] COc(c1)cccc1C# 58: [20:40:09] ~~~~~~~~~~~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 14: 58: [20:40:09] COc(c1)cccc1C# 58: [20:40:09] ~~~~~~~~~~~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 58: C=c1s/c2n(c1=O)CCCCCCC\N=2 58: C1=C\C/C=C2C3=C\C/C=C\C=C/C/3C\2\C=C/1 58: [20:40:09] SMILES Parse Error: extra close parentheses while parsing: C) 58: [20:40:09] SMILES Parse Error: check for mistakes around position 2: 58: [20:40:09] C) 58: [20:40:09] ~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'C)' for input: 'C)' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: CC=(CO)C 58: [20:40:09] SMILES Parse Error: check for mistakes around position 4: 58: [20:40:09] CC=(CO)C 58: [20:40:09] ~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'CC=(CO)C' for input: 'CC=(CO)C' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: CC=(CO)C 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 4: 58: [20:40:09] CC=(CO)C 58: [20:40:09] ~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'CC=(CO)C' for input: 'CC=(CO)C' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: baz 58: [20:40:09] SMILES Parse Error: check for mistakes around position 2: 58: [20:40:09] baz 58: [20:40:09] ~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'baz' for input: 'baz' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: baz 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 3: 58: [20:40:09] baz 58: [20:40:09] ~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'baz' for input: 'baz' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: fff 58: [20:40:09] SMILES Parse Error: check for mistakes around position 1: 58: [20:40:09] fff 58: [20:40:09] ^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'fff' for input: 'fff' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: fff 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 1: 58: [20:40:09] fff 58: [20:40:09] ^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'fff' for input: 'fff' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: C+0 58: [20:40:09] SMILES Parse Error: check for mistakes around position 2: 58: [20:40:09] C+0 58: [20:40:09] ~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'C+0' for input: 'C+0' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: C+0 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 2: 58: [20:40:09] C+0 58: [20:40:09] ~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'C+0' for input: 'C+0' 58: [20:40:09] SMILES Parse Error: number too large while parsing: [555555555555555555C] 58: [20:40:09] SMILES Parse Error: check for mistakes around position 11: 58: [20:40:09] [555555555555555555C] 58: [20:40:09] ~~~~~~~~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES '[555555555555555555C]' for input: '[555555555555555555C]' 58: [20:40:09] SMARTS Parse Error: number too large while parsing: [555555555555555555C] 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 11: 58: [20:40:09] [555555555555555555C] 58: [20:40:09] ~~~~~~~~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS '[555555555555555555C]' for input: '[555555555555555555C]' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: [Fe@TD] 58: [20:40:09] SMILES Parse Error: check for mistakes around position 5: 58: [20:40:09] [Fe@TD] 58: [20:40:09] ~~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES '[Fe@TD]' for input: '[Fe@TD]' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: [Fe@TD] 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 5: 58: [20:40:09] [Fe@TD] 58: [20:40:09] ~~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS '[Fe@TD]' for input: '[Fe@TD]' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: c%()ccccc%() 58: [20:40:09] SMILES Parse Error: check for mistakes around position 4: 58: [20:40:09] c%()ccccc%() 58: [20:40:09] ~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'c%()ccccc%()' for input: 'c%()ccccc%()' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: c%()ccccc%() 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 4: 58: [20:40:09] c%()ccccc%() 58: [20:40:09] ~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'c%()ccccc%()' for input: 'c%()ccccc%()' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 58: [20:40:09] SMILES Parse Error: check for mistakes around position 9: 58: [20:40:09] c%(100000)ccccc%(100000) 58: [20:40:09] ~~~~~~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 9: 58: [20:40:09] c%(100000)ccccc%(100000) 58: [20:40:09] ~~~~~~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 58: [20:40:09] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 58: [20:40:09] SMILES Parse Error: check for mistakes around position 14: 58: [20:40:09] COc(c1)cccc1C# 58: [20:40:09] ~~~~~~~~~~~~~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 14: 58: [20:40:09] COc(c1)cccc1C# 58: [20:40:09] ~~~~~~~~~~~~~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 58: [20:40:09] SMILES Parse Error: extra close parentheses while parsing: C) 58: [20:40:09] SMILES Parse Error: check for mistakes around position 2: 58: [20:40:09] C) 58: [20:40:09] ~^ 58: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'C)' for input: 'C)' 58: [20:40:09] SMARTS Parse Error: syntax error while parsing: C) 58: [20:40:09] SMARTS Parse Error: check for mistakes around position 2: 58: [20:40:09] C) 58: [20:40:09] ~^ 58: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'C)' for input: 'C)' 55/243 Test #58: smiTest1 ............................... Passed 0.11 sec test 59 Start 59: smiTest2 59: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTest2 59: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 59: Test timeout computed to be: 1500 59: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'CO' for input: 'CO' 59: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'C-O' for input: 'C-O' 59: [20:40:09] SMILES Parse Error: syntax error while parsing: - 59: [20:40:09] SMILES Parse Error: check for mistakes around position 1: 59: [20:40:09] - 59: [20:40:09] ^ 59: [20:40:09] SMILES Parse Error: Failed parsing SMILES '-' for input: '-' 59: [20:40:09] SMILES Parse Error: Failed parsing SMILES '[Bg]' for input: '[Bg]' 59: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'C' for input: 'C' 59: [20:40:09] SMILES Parse Error: Failed parsing SMILES 'C-O' for input: 'C-O' 59: [20:40:09] SMILES Parse Error: Failed parsing SMILES '*' for input: '*' 59: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'CO' for input: 'CO' 59: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'C-O' for input: 'C-O' 59: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS '-' for input: '-' 59: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS '[Bg]' for input: '[Bg]' 59: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS 'C' for input: 'C' 59: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS '-O' for input: '-O' 59: [20:40:09] SMARTS Parse Error: Failed parsing SMARTS '*' for input: '*' 56/243 Test #59: smiTest2 ............................... Passed 0.01 sec test 60 Start 60: cxsmilesTest 60: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/cxsmilesTest 60: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 60: Test timeout computed to be: 1500 60: Randomness seeded to: 3539055609 60: Test 60: 60: ShortAtropisomerNoCoords.cxsmi 60: 60: Test 60: 60: ShortAtropisomer.cxsmi 60: 60: Test 60: 60: ShortAtropisomerArom.cxsmi 60: 60: Test 60: 60: AtropManyChirals.cxsmi 60: 60: Test 60: 60: AtropManyChiralsEnhanced.cxsmi 60: 60: Test 60: 60: AtropManyChiralsEnhanced2.cxsmi 60: 60: Test 60: 60: AtropManyChiralsEnhanced3.cxsmi 60: 60: Test 60: 60: AtropManyChiralsEnhanced4.cxsmi 60: 60: Test 60: 60: BMS-986142_3d_chiral.cxsmi 60: 60: Test 60: 60: BMS-986142_3d.cxsmi 60: 60: Test 60: 60: BMS-986142_atrop1.cxsmi 60: 60: Test 60: 60: BMS-986142_atrop2.cxsmi 60: 60: Test 60: 60: BMS-986142_atrop3.cxsmi 60: 60: Test 60: 60: BMS-986142_atrop4.cxsmi 60: 60: Test 60: 60: BMS-986142_atrop5.cxsmi 60: 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: Test 60: 60: BMS-986142_atrop6.cxsmi 60: 60: Test 60: 60: BMS-986142_atropBad1.cxsmi 60: 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 60: Test 60: 60: BMS-986142_atropBad2.cxsmi 60: 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 60: Test 60: 60: JDQ443_3d.cxsmi 60: 60: Test 60: 60: JDQ443_atrop1.cxsmi 60: 60: Test 60: 60: JDQ443_atrop2.cxsmi 60: 60: Test 60: 60: JDQ443_atrop3.cxsmi 60: 60: Test 60: 60: JDQ443_atrop4.cxsmi 60: 60: Test 60: 60: JDQ443_atropBad1.cxsmi 60: 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 60: Test 60: 60: RP-6306_atrop1.cxsmi 60: 60: Test 60: 60: RP-6306_atrop2.cxsmi 60: 60: Test 60: 60: RP-6306_atrop3.cxsmi 60: 60: Test 60: 60: RP-6306_atrop4.cxsmi 60: 60: Test 60: 60: RP-6306_atrop5.cxsmi 60: 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 60: Test 60: 60: RP-6306_atrop6.cxsmi 60: 60: Test 60: 60: RP-6306_atropBad1.cxsmi 60: 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 60: Test 60: 60: RP-6306_atropBad2.cxsmi 60: 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 60: Test 60: 60: RP-6306_3d.cxsmi 60: 60: Test 60: 60: Sotorasib_atrop1.cxsmi 60: 60: Test 60: 60: Sotorasib_atrop2.cxsmi 60: 60: Test 60: 60: Sotorasib_atrop3.cxsmi 60: 60: Test 60: 60: Sotorasib_atrop4.cxsmi 60: 60: Test 60: 60: Sotorasib_atrop5.cxsmi 60: 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: [20:40:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 60: Test 60: 60: Sotorasib_atropBad1.cxsmi 60: 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 60: Test 60: 60: Sotorasib_atropBad2.cxsmi 60: 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 60: [20:40:09] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 60: Test 60: 60: Sotorasib_3d.cxsmi 60: 60: Test 60: 60: ZM374979_atrop1.cxsmi 60: 60: Test 60: 60: ZM374979_atrop2.cxsmi 60: 60: Test 60: 60: ZM374979_atrop3.cxsmi 60: 60: Test 60: 60: ZM374979_atrop4.cxsmi 60: 60: Test 60: 60: ZM374979_atropBad1.cxsmi 60: 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 60: Test 60: 60: Mrtx1719_3d.cxsmi 60: 60: Test 60: 60: Mrtx1719_atrop1.cxsmi 60: 60: Test 60: 60: Mrtx1719_atrop2.cxsmi 60: 60: Test 60: 60: Mrtx1719_atrop3.cxsmi 60: 60: Test 60: 60: Mrtx1719_atrop4.cxsmi 60: 60: Test 60: 60: Mrtx1719_atropBad1.cxsmi 60: 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 60: [20:40:09] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 29: Checking against /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 29: All 191 tests passed 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_hypervalent.smi... 60: Test 60: 60: AtropCanon1.cxsmi 60: 60: Test 60: 60: AtropCanon2.cxsmi 60: 60: Test 60: 60: AtropCanon3.cxsmi 60: 60: Test 60: 60: BMS-986142_3d_chiral.cxsmi 60: 60: Test 60: 60: BMS-986142_3d.cxsmi 60: 60: =============================================================================== 60: All tests passed (2500 assertions in 32 test cases) 60: 57/243 Test #60: cxsmilesTest ........................... Passed 0.57 sec test 61 Start 61: smaTest1 61: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smaTest1 61: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 61: Test timeout computed to be: 1500 61: [20:40:10] SMARTS Parse Error: syntax error while parsing: [C:10H3]CC 61: [20:40:10] SMARTS Parse Error: check for mistakes around position 6: 61: [20:40:10] [C:10H3]CC 61: [20:40:10] ~~~~~^ 61: [20:40:10] SMARTS Parse Error: Failed parsing SMARTS '[C:10H3]CC' for input: '[C:10H3]CC' 61: [20:40:10] SMARTS Parse Error: syntax error while parsing: [C:10:3]ON 61: [20:40:10] SMARTS Parse Error: check for mistakes around position 6: 61: [20:40:10] [C:10:3]ON 61: [20:40:10] ~~~~~^ 61: [20:40:10] SMARTS Parse Error: Failed parsing SMARTS '[C:10:3]ON' for input: '[C:10:3]ON' 61: [20:40:10] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 61: [20:40:10] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 58/243 Test #61: smaTest1 ............................... Passed 0.07 sec test 62 Start 62: smiTestCatch 62: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 62: Test timeout computed to be: 1500 62: Randomness seeded to: 3177164520 62: [20:40:10] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 62: [20:40:10] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 62: [20:40:10] SMARTS Parse Error: unclosed ring for input: 'c1ccccc' 62: [20:40:10] SMARTS Parse Error: unclosed ring for input: 'C1C' 62: [20:40:10] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 62: [20:40:10] SMARTS Parse Error: syntax error while parsing: C)foo 62: [20:40:10] SMARTS Parse Error: check for mistakes around position 2: 62: [20:40:10] C)foo 62: [20:40:10] ~^ 62: [20:40:10] SMARTS Parse Error: Failed parsing SMARTS 'C)foo' for input: 'C)foo' 62: [20:40:10] SMARTS Parse Error: syntax error while parsing: CCC |$foo;;bar$| 62: [20:40:10] SMARTS Parse Error: check for mistakes around position 4: 62: [20:40:10] CCC |$foo;;bar$| 62: [20:40:10] ~~~^ 62: [20:40:10] SMARTS Parse Error: Failed parsing SMARTS 'CCC |$foo;;bar$|' for input: 'CCC |$foo;;bar$|' 62: [20:40:10] unrecognized CXSMILES CONNECT value: 'EU'. Assuming 'eu' 62: [20:40:10] w block attempts to set wedging on bond 0 more than once. 62: [20:40:10] improperly formatted w block 62: [20:40:10] atom 3 is not associated with bond 1(1-2) in w block 62: [20:40:11] SMARTS Parse Error: unclosed ring for input: 'C1.C2.C3.C4.C5' 62: [20:40:11] SMILES Parse Error: unclosed ring for input: 'C1.C2.C3.C4.C5' 62: [20:40:11] SMARTS Parse Error: syntax error while parsing: C1C)foo 62: [20:40:11] SMARTS Parse Error: check for mistakes around position 4: 62: [20:40:11] C1C)foo 62: [20:40:11] ~~~^ 62: [20:40:11] SMARTS Parse Error: Failed parsing SMARTS 'C1C)foo' for input: 'C1C)foo' 62: [20:40:11] SMILES Parse Error: extra close parentheses while parsing: C1C)foo 62: [20:40:11] SMILES Parse Error: check for mistakes around position 4: 62: [20:40:11] C1C)foo 62: [20:40:11] ~~~^ 62: [20:40:11] SMILES Parse Error: Failed parsing SMILES 'C1C)foo' for input: 'C1C)foo' 62: [20:40:11] 62: 62: **** 62: Pre-condition Violation 62: rootedAtAtom must be less than the number of atoms 62: Violation occurred on line 498 in file ./Code/GraphMol/SmilesParse/SmilesWrite.cpp 62: Failed Expression: params.rootedAtAtom < 0 || static_cast(params.rootedAtAtom) < mol.getNumAtoms() 62: ---------- 62: Stacktrace: 62: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 62: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 62: 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 62: 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 62: 4# 0x0000AAAACC7BBF5C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: 5# 0x0000AAAACC85032C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: 6# 0x0000AAAACC850CE0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: 7# 0x0000AAAACC851114 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: 8# 0x0000AAAACC824638 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: 9# 0x0000AAAACC824B6C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: 10# 0x0000AAAACC7B668C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: 11# 0x0000FFFFA90E229C in /lib/aarch64-linux-gnu/libc.so.6 62: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 62: 13# 0x0000AAAACC7B6770 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 62: ---------- 62: **** 62: 62: [20:40:11] SMILES Parse Error: syntax error while parsing: CClâ‚‚O 62: [20:40:11] SMILES Parse Error: check for mistakes around position 4: 62: [20:40:11] CClâ‚‚O 62: [20:40:11] ~~~^ 62: [20:40:11] SMILES Parse Error: Failed parsing SMILES 'CClâ‚‚O' for input: 'CClâ‚‚O' 62: [20:40:11] SMARTS Parse Error: syntax error while parsing: CClâ‚‚O 62: [20:40:11] SMARTS Parse Error: check for mistakes around position 4: 62: [20:40:11] CClâ‚‚O 62: [20:40:11] ~~~^ 62: [20:40:11] SMARTS Parse Error: Failed parsing SMARTS 'CClâ‚‚O' for input: 'CClâ‚‚O' 62: [20:40:11] SMILES Parse Error: syntax error while parsing: CClâ‚‚OZrâ‚‚CClO 62: [20:40:11] SMILES Parse Error: check for mistakes around position 4: 62: [20:40:11] CClâ‚‚OZrâ‚‚CClO 62: [20:40:11] ~~~^ 62: [20:40:11] SMILES Parse Error: Failed parsing SMILES 'CClâ‚‚OZrâ‚‚CClO' for input: 'CClâ‚‚OZrâ‚‚CClO' 62: [20:40:11] SMARTS Parse Error: syntax error while parsing: CClâ‚‚OZrâ‚‚CClO 62: [20:40:11] SMARTS Parse Error: check for mistakes around position 4: 62: [20:40:11] CClâ‚‚OZrâ‚‚CClO 62: [20:40:11] ~~~^ 62: [20:40:11] SMARTS Parse Error: Failed parsing SMARTS 'CClâ‚‚OZrâ‚‚CClO' for input: 'CClâ‚‚OZrâ‚‚CClO' 62: =============================================================================== 62: All tests passed (1834 assertions in 74 test cases) 62: 59/243 Test #62: smiTestCatch ........................... Passed 1.30 sec test 63 Start 63: nontetrahedralCatch 63: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/nontetrahedralCatch 63: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 63: Test timeout computed to be: 1500 63: Randomness seeded to: 145553020 63: [20:40:11] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 63: [20:40:11] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 63: [20:40:11] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 63: [20:40:11] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 63: [20:40:11] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 63: [20:40:11] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 63: [20:40:11] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 63: [20:40:11] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 63: [20:40:11] ignoring non-tetrahedral stereo specification since setAllowNontetrahedralChirality() is false. 63: =============================================================================== 63: All tests passed (308 assertions in 9 test cases) 63: 60/243 Test #63: nontetrahedralCatch .................... Passed 0.03 sec test 64 Start 64: v2smiTestCatch 64: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/v2smiTestCatch 64: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 64: Test timeout computed to be: 1500 64: Randomness seeded to: 2331077315 64: =============================================================================== 64: All tests passed (14 assertions in 2 test cases) 64: 61/243 Test #64: v2smiTestCatch ......................... Passed 0.01 sec test 65 Start 65: smartsTestCatch 65: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/smartsTestCatch 65: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse 65: Test timeout computed to be: 1500 65: Randomness seeded to: 2553157653 65: =============================================================================== 65: All tests passed (5 assertions in 1 test case) 65: 62/243 Test #65: smartsTestCatch ........................ Passed 0.02 sec test 66 Start 66: testDepictor 66: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/testDepictor 66: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor 66: Test timeout computed to be: 1500 66: [20:40:11] *********************************************************** 66: [20:40:11] test1 66: [20:40:11] *********************************************************** 66: 66: [20:40:11] *********************************************************** 66: [20:40:11] testCollisions 66: [20:40:11] *********************************************************** 66: 66: [20:40:11] *********************************************************** 66: [20:40:11] testAddHs 66: [20:40:11] *********************************************************** 66: 66: [20:40:11] *********************************************************** 66: [20:40:11] test198 66: [20:40:11] *********************************************************** 66: 66: [20:40:11] *********************************************************** 66: [20:40:11] test2 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] test3 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] test4 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] tempTest 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Issue248 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Queries 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test crashes associated with RemoveHs 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Issue 2091304 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Issue 2821647 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Issue 2948402 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Issue 2995724 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Testing a change of the depictor bond length 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Issue 3122141 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Issue 3135833 66: [20:40:11] Warning: stereochemistry around double bond may be incorrect in depiction. 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Issue 3487469 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test GitHub Issue 8 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test GitHub Issue 78 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test GitHub Issue 910 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test GitHub Issue 1073 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] testConstrainedCoords 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test GitHub Issue 1112: Bad coordinate generation for H2 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test Issue 2303566 66: [20:40:11] *********************************************************** 66: [20:40:11] *********************************************************** 66: [20:40:11] Test GitHub Issue 1286: GenerateDepictionMatching2DStructure isn't matching 2D structure 66: [20:40:11] *********************************************************** 66: [20:40:11] ----------------------- 66: Testing Github issue 1691: Acetylenic hydrogens not given appropriate 2D coordinates 66: [20:40:11] Finished 66: [20:40:11] ----------------------- 66: Testing Github issue 2027: "linear" fragments not canonically oriented 66: [20:40:11] Finished 66: [20:40:11] ----------------------- 66: Test generateDepictionMatching2DStructure with refPattern and matchVect 66: [20:40:11] Finished 66: [20:40:11] ----------------------- 66: Test generateDepictionMatching2DStructure with allowRGroups 66: [20:40:11] Finished 66: [20:40:11] ----------------------- 66: Test generateDepictionMatching2DStructure with allowRGroups 66: [20:40:11] Finished 66: [20:40:11] ----------------------- 66: Test normalize and straighten depiction 66: [20:40:11] Finished 66: [20:40:11] ----------------------- 66: Test that ring system templates are valid 66: [20:40:11] Finished 63/243 Test #66: testDepictor ........................... Passed 0.19 sec test 67 Start 67: depictorCatch 67: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/depictorCatch 67: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor 67: Test timeout computed to be: 1500 67: Randomness seeded to: 4213517042 67: =============================================================================== 67: All tests passed (1015 assertions in 20 test cases) 67: 64/243 Test #67: depictorCatch .......................... Passed 0.07 sec test 68 Start 68: pyDepictor 68: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Depictor/Wrap/testDepictor.py" 68: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap 68: Test timeout computed to be: 1500 29: Checking against /build/reproducible-path/rdkit-202503.6/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 29: All 191 tests passed 29: done 29: ------------------------------------- 29: Unit tests for all MMFF constraint terms. 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. 29: done 65/243 Test #29: testMMFFForceField ..................... Passed 6.26 sec test 69 Start 69: testMrvToMol 69: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 69: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse 69: Test timeout computed to be: 1500 68: ...............[20:40:12] SMILES Parse Error: syntax error while parsing: invalidsmiles 68: [20:40:12] SMILES Parse Error: check for mistakes around position 1: 68: [20:40:12] invalidsmiles 68: [20:40:12] ^ 68: [20:40:12] SMILES Parse Error: Failed parsing SMILES 'invalidsmiles' for input: 'invalidsmiles' 69: Using new chirality perception 69: Test 69: 69: rxnStereoMarkedCrossed.mrv 69: 69: Test 69: 69: 145323811.mol 69: 69: [20:40:12] unsupported number of radical electrons 5 69: Test 69: 69: NewChiralTest.sdf 69: 69: Test 69: 69: NewChiralTest.sdf 69: 69: Test 69: 69: NewChiralTestNoChiral.sdf 69: 69: Test 69: 69: NewChiralTestNoChiral.sdf 69: 69: Test 69: 69: NewChiralTestAllChiral.sdf 69: 69: Test 69: 69: NewChiralTestAllChiral.sdf 69: 69: Test 69: 69: vendor839.sdf 69: 69: Test 69: 69: ProblemShort.mol 69: 69: [20:40:12] For a MultipleSgroup expansion, the matching orphaned bond was not found 69: The multiple sgroup will be ignored 68: ..... 68: ---------------------------------------------------------------------- 68: Ran 20 tests in 0.246s 68: 68: OK 66/243 Test #68: pyDepictor ............................. Passed 0.45 sec test 70 Start 70: fileParsersTest1 70: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 70: Test timeout computed to be: 1500 70: *************************************** 70: *************************************** 70: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 70: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 70: [20:40:12] bond with order 0 found on line 7. This is not part of the MDL specification. 70: [20:40:12] Skipping unrecognized collection type at line 26: MDLV30/HILITE BONDS=(1 7) 70: [20:40:12] Skipping unrecognized collection type at line 27: MDLV30/HILITE ATOMS=(1 7) 70: [20:40:12] 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: generating smiles 70: 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 70: converting back 70: check isomorphism 69: Test 69: 69: badWedgeError.sdf 69: 69: Test 69: 69: CrossedDoubleBondWithChiralNbr2.sdf 69: 69: Test 69: 69: CrossedDoubleBondWithChiralNbr.sdf 69: 69: Test 69: 69: SimpleWiggleDoubleBond.sdf 69: 69: Test 69: 69: lostStereoAnd.sdf 69: 69: Test 69: 69: DoubleBondChain.sdf 69: 69: Test 69: 69: UnitsError.sdf 69: 69: Test 69: 69: StarAtom.sdf 69: 69: Test 69: 69: nonProprietary.mol 69: 69: Test 69: 69: ChiralTest.sdf 69: 69: Test 69: 69: TestBond1.mol 69: 69: Test 69: 69: Sgroup_MUL_ParentInMiddle.sdf 69: 69: Test 69: 69: BadRxn.rxn 69: 69: Test 69: 69: FalseChiral.mrv 69: 69: Test 69: 69: FalseChiral.mrv 69: 69: Test 69: 69: Cubane.mrv 69: 69: Test 69: 69: NewChiralTest.mrv 69: 69: Test 69: 69: NewChiralTest.mrv 69: 69: Test 69: 69: NewChiralTestNoChiral.mrv 69: 69: Test 69: 69: NewChiralTestNoChiral.mrv 69: 69: Test 69: 69: NewChiralTestAllChiral.mrv 69: 69: Test 69: 69: NewChiralTestAllChiral.mrv 69: 69: Test 69: 69: DataSgroupMissingUnitsDisplayed.mrv 69: 69: Test 69: 69: lostStereoAnd.mrv 69: 69: Test 69: 69: DoubleBondChain.mrv 69: 69: Test 69: 69: WigglyAndCrossed.mrv 69: 69: Test 69: 69: BondTypes.mrv 69: 69: Test 69: 69: EmbeddedSGroupSUP_MUL.mrv 69: 69: Test 69: 69: EmbeddedSgroupCOP_SUP.mrv 69: 69: Test 69: 69: EmbeddedSgroupDAT_SUP.mrv 69: 69: Test 69: 69: EmbeddedSgroupMULTICENTER_SUP.mrv 69: 69: Test 69: 69: EmbeddedSgroupMUL_MUL.mrv 69: 69: Test 69: 69: EmbeddedSgroupMUL_MUL2.mrv 69: 69: Test 69: 69: EmbeddedSgroupMUL_SUP.mrv 69: 69: Test 69: 69: EmbeddedSgroupSRU_SUP.mrv 69: 69: Test 69: 69: EmbeddedSgroupSUPEXP_SUP.mrv 69: 69: Test 69: 69: EmbeddedSgroupSUPEXP_SUP2.mrv 69: 69: Test 69: 69: EmbeddedSgroupSUP_MULTICENTER.mrv 69: 69: Test 69: 69: EmbeddedSgroupSUP_SUP.mrv 69: 69: Test 69: 69: EmbeddedSgroupSUP_SUP2.mrv 69: 69: Test 69: 69: RgroupBad.mrv 69: 69: Test 69: 69: valenceLessThanDrawn.mrv 69: 69: Test 69: 69: data_sgroup_no_fieldname.mrv 69: 69: Test 69: 69: data_sgroup_empty_field_data.mrv 69: 69: Test 69: 69: radical_value.mrv 69: 69: Test 69: 69: emptyOneLineAtomList.mrv 69: 69: Test 69: 69: mrvValence_value.mrv 69: 69: Test 69: 69: ChiralTest2.mrv 69: 69: Test 69: 69: ChiralTest.mrv 69: 69: Test 69: 69: SnCl2.mrv 69: 69: Test 69: 69: SnH2Cl2.mrv 69: 69: Test 69: 69: marvin01.mrv 69: 69: Test 69: 69: marvin02.mrv 69: 69: Test 69: 69: marvin07.mrv 69: 69: Test 69: 69: marvin10.mrv 69: 69: Test 69: 69: marvin06.mrv 69: 69: Test 69: 69: marvin12.mrv 69: 69: Test 69: 69: EmptyMol.mrv 69: 69: Test 69: 69: Sparse.mrv 69: 69: Test 69: 69: Sparse2.mrv 69: 69: Test 69: 69: Sparse3.mrv 69: 69: Test 69: 69: MarvinNoCoords.mrv 69: 69: Test 69: 69: aspirin.mrv 69: 69: Test 69: 69: MarvinStereoGroupsZeros.mrv 69: 69: Test 69: 69: MarvinStereoGroupsAbs.mrv 69: 69: Test 69: 69: triphenylphosphine.mrv 69: 69: Test 69: 69: MarvinOldSuperGroupTest.mrv 69: 69: Test 69: 69: RadicalTests.mrv 69: 69: Test 69: 69: AnyBond.mrv 69: 69: Test 69: 69: cisBenzene.mrv 69: 69: Test 69: 69: DativeBond.mrv 69: 69: Test 69: 69: MultipleSgroup.mrv 69: 69: Test 69: 69: SgroupExpanded.mrv 69: 69: Test 69: 69: SgroupMultAttach.mrv 69: 69: Test 69: 69: MarvinMissingX2.mrv 69: 69: Test 69: 69: MarvinMissingY2.mrv 69: 69: Test 69: 69: DataSgroup.mrv 69: 69: Test 69: 69: MulticenterSgroup.mrv 69: 69: [20:40:12] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 69: [20:40:12] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 69: Test 69: 69: GenericSgroup.mrv 69: 69: Test 69: 69: MonomerSgroup.mrv 69: 69: Test 69: 69: modification_sgroup.mrv 69: 69: Test 69: 69: copolymer_sgroup.mrv 69: 69: Test 69: 69: MultipleSgroupParentInMiddleOfAtomBlock.mrv 69: 69: Test 69: 69: EmbeddedSgroups.mrv 69: 69: Test 69: 69: marvin03.mrv 69: 69: Test 69: 69: MarvinBadMissingMolID.mrv 69: 69: [20:40:12] 69: 69: **** 69: Test Assert 69: Expression Failed: 69: Violation occurred on line 329 in file ./Code/GraphMol/MarvinParse/testMrvToMol.cpp 69: Failed Expression: GetExpectedValue(expectedMrvName) == outMolStr 69: ---------- 69: Stacktrace: 69: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 69: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 69: 2# 0x0000AAAAD5A94788 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 69: 3# 0x0000AAAAD5AA0918 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 69: 4# 0x0000AAAAD5A88914 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 69: 5# 0x0000FFFF95E7229C in /lib/aarch64-linux-gnu/libc.so.6 69: 6# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 69: 7# 0x0000AAAAD5A88B70 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 69: ---------- 69: **** 69: 69: Test 69: 69: MarvinBadMissingAtomID.mrv 69: 69: Expected id, elementType for an atom definition in MRV file 69: Test 69: 69: MarvinBadX2.mrv 69: 69: The values x2 and y2 must be large floats in MRV file 69: Test 69: 69: MarvinBadY2.mrv 69: 69: The values x2 and y2 must be large floats in MRV file 69: Test 69: 69: MarvinBadStereoGroupsAbs.mrv 69: 69: Unrecognized group definition 69: Test 69: 69: MarvinBadElementType.mrv 69: 69: Test 69: 69: MarvinBadMissingBondID.mrv 69: 69: Test 69: 69: MarvinBadMissingBondAtomRefs 69: 69: Test 69: 69: MarvinBadMissingBondOrder.mrv 69: 69: bond must have one of: order, queryType, or convention in MRV File 69: Test 69: 69: MarvinBadMissingSruMolID.mrv 69: 69: Expected a molID in MRV file 69: Test 69: 69: MarvinBadMissingSruID.mrv 69: 69: Test 69: 69: MarvinBadMissingSruRole.mrv 69: 69: Test 69: 69: MarvinBadMissingSruAtomRef.mrv 69: 69: Test 69: 69: MarvinBadMissingSruTitle.mrv 69: 69: Test 69: 69: MarvinBadSruAtomRef.mrv 69: 69: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 69: Test 69: 69: MarvinBadSruID.mrv 69: 69: Test 69: 69: MarvinBadSruRole.mrv 69: 69: Test 69: 69: MarvinBadSruAtomRef.mrv 69: 69: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 69: Test 69: 69: MarvinBadSruAtomRef.mrv 69: 69: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 69: Test 69: 69: MarvinBadSruConnect.mrv 69: 69: Expected a connect string of "hh, ht, eu" for a SruSgroup definition in MRV file 69: Test 69: 69: MarvinBadSupAttachAtom.mrv 69: 69: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 69: Test 69: 69: MarvinBadSupAttachBond.mrv 69: 69: Bond specification for an AttachmentPoint definition must be in the bond array in MRV file 69: Test 69: 69: MarvinBadSupAttachOrder.mrv 69: 69: Order for an AttachmentPoint definition must be an integer in MRV file 69: Test 69: 69: MarvinBadSupAttachAtom.mrv 69: 69: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 69: Test 69: 69: MarvinBadSupAttachAtom.mrv 69: 69: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 69: Test 69: 69: MarvinBadSupAttachAtom.mrv 69: 69: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 69: Test 69: 69: MarvinBadSupMissingAttachBond.mrv 69: 69: No attachment point found for bond to the condensed atom in a superatomSgroup 69: Test 69: 69: MarvinBadSupMissingAttachOrder.mrv 69: 69: Expected atom, order and bond, for an AttachmentPoint definition in MRV file 69: Test 69: 69: marvin03.mrv 69: 69: Test 69: 69: Cubane.mrv 69: 69: Test 69: 69: FalseAtropisomer.mrv 69: 69: Test 69: 69: AtropEnhancedStereo.mrv 69: 69: Test 69: 69: AtropManyChirals.mrv 69: 69: Test 69: 69: AtropManyChiralsEnhanced.mrv 69: 69: Test 69: 69: AtropManyChiralsEnhanced2.mrv 69: 69: Test 69: 69: AtropManyChiralsEnhanced3.mrv 69: 69: Test 69: 69: AtropManyChiralsEnhanced4.mrv 69: 69: Test 69: 69: BMS-986142_3d_chiral.mrv 69: 69: Test 69: 69: BMS-986142_3d.mrv 69: 69: Test 69: 69: BMS-986142_atrop1.mrv 69: 69: Test 69: 69: BMS-986142_atrop2.mrv 69: 69: Test 69: 69: BMS-986142_atrop3.mrv 69: 69: Test 69: 69: BMS-986142_atrop4.mrv 69: 69: Test 69: 69: BMS-986142_atrop5.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: Test 69: 69: BMS-986142_atrop6.mrv 69: 69: Test 69: 69: BMS-986142_atrop7.mrv 69: 69: Test 69: 69: BMS-986142_atrop8.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: Test 69: 69: BMS-986142_atropBad2.mrv 69: 69: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 69: Test 69: 69: JDQ443_3d.mrv 69: 69: Test 69: 69: JDQ443_atrop1.mrv 69: 69: Test 69: 69: JDQ443_atrop2.mrv 69: 69: Test 69: 69: JDQ443_atrop3.mrv 69: 69: Test 69: 69: JDQ443_atropBad1.mrv 69: 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 69: Test 69: 69: RP-6306_atrop1.mrv 69: 69: Test 69: 69: RP-6306_atrop2.mrv 69: 69: Test 69: 69: RP-6306_atrop3.mrv 69: 69: Test 69: 69: RP-6306_atrop4.mrv 69: 69: Test 69: 69: RP-6306_atrop5.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 69: Test 69: 69: RP-6306_atropBad1.mrv 69: 69: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 69: Test 69: 69: RP-6306_atropBad2.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 69: Test 69: 69: RP-6306_3d.mrv 69: 69: Test 69: 69: Sotorasib_atrop1.mrv 69: 69: Test 69: 69: Sotorasib_atrop2.mrv 69: 69: Test 69: 69: Sotorasib_atrop3.mrv 69: 69: Test 69: 69: Sotorasib_atrop4.mrv 69: 69: Test 69: 69: Sotorasib_atrop5.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: Test 69: 69: Sotorasib_atropBad1.mrv 69: 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 69: Test 69: 69: Sotorasib_atropBad2.mrv 69: 69: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 69: Test 69: 69: Sotorasib_3d.mrv 69: 69: Test 69: 69: ZM374979_atrop1.mrv 69: 69: Test 69: 69: ZM374979_atrop2.mrv 69: 69: Test 69: 69: ZM374979_atrop3.mrv 69: 69: Test 69: 69: ZM374979_atropBad1.mrv 69: 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 69: Test 69: 69: mrtx1719_3d.mrv 69: 69: Test 69: 69: mrtx1719_atrop1.mrv 69: 69: Test 69: 69: mrtx1719_atrop2.mrv 69: 69: Test 69: 69: mrtx1719_atrop3.mrv 69: 69: Test 69: 69: mrtx1719_atropBad1.mrv 69: 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 69: Test 69: 69: FalseAtropisomer.mrv 69: 69: Test 69: 69: AtropEnhancedStereo.mrv 69: 69: Test 69: 69: AtropManyChirals.mrv 69: 69: Test 69: 69: AtropManyChiralsEnhanced.mrv 69: 69: Test 69: 69: AtropManyChiralsEnhanced2.mrv 69: 69: Test 69: 69: AtropManyChiralsEnhanced3.mrv 69: 69: Test 69: 69: AtropManyChiralsEnhanced4.mrv 69: 69: Test 69: 69: BMS-986142_3d_chiral.mrv 69: 69: Test 69: 69: BMS-986142_3d.mrv 69: 69: Test 69: 69: BMS-986142_atrop1.mrv 69: 69: Test 69: 69: BMS-986142_atrop2.mrv 69: 69: Test 69: 69: BMS-986142_atrop3.mrv 69: 69: Test 69: 69: BMS-986142_atrop4.mrv 69: 69: Test 69: 69: BMS-986142_atrop5.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: Test 69: 69: BMS-986142_atrop6.mrv 69: 69: Test 69: 69: BMS-986142_atrop7.mrv 69: 69: Test 69: 69: BMS-986142_atrop8.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: Test 69: 69: BMS-986142_atropBad2.mrv 69: 69: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 69: Test 69: 69: JDQ443_3d.mrv 69: 69: Test 69: 69: JDQ443_atrop1.mrv 69: 69: Test 69: 69: JDQ443_atrop2.mrv 69: 69: Test 69: 69: JDQ443_atrop3.mrv 69: 69: Test 69: 69: JDQ443_atropBad1.mrv 69: 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 69: Test 69: 69: RP-6306_atrop1.mrv 69: 69: Test 69: 69: RP-6306_atrop2.mrv 69: 69: Test 69: 69: RP-6306_atrop3.mrv 69: 69: Test 69: 69: RP-6306_atrop4.mrv 69: 69: Test 69: 69: RP-6306_atrop5.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 69: Test 69: 69: RP-6306_atropBad1.mrv 69: 69: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 69: Test 69: 69: RP-6306_atropBad2.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 69: Test 69: 69: RP-6306_3d.mrv 69: 69: Test 69: 69: Sotorasib_atrop1.mrv 69: 69: Test 69: 69: Sotorasib_atrop2.mrv 69: 69: Test 69: 69: Sotorasib_atrop3.mrv 69: 69: Test 69: 69: Sotorasib_atrop4.mrv 69: 69: Test 69: 69: Sotorasib_atrop5.mrv 69: 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 69: Test 69: 69: Sotorasib_atropBad1.mrv 69: 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 69: Test 69: 69: Sotorasib_atropBad2.mrv 69: 69: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 69: Test 69: 69: Sotorasib_3d.mrv 69: 69: Test 69: 69: ZM374979_atrop1.mrv 69: 69: Test 69: 69: ZM374979_atrop2.mrv 69: 69: Test 69: 69: ZM374979_atrop3.mrv 69: 69: Test 69: 69: ZM374979_atropBad1.mrv 69: 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 69: Test 69: 69: mrtx1719_3d.mrv 69: 69: Test 69: 69: mrtx1719_atrop1.mrv 69: 69: Test 69: 69: mrtx1719_atrop2.mrv 69: 69: Test 69: 69: mrtx1719_atrop3.mrv 69: 69: Test 69: 69: mrtx1719_atropBad1.mrv 69: 69: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 69: Test 69: 69: AlexRxn.mrv 69: 69: Test 69: 69: BadReactionSign.mrv 69: 69: Test 69: 69: bondArray_node.mrv 69: 69: Test 69: 69: marvin03.mrv 69: 69: Test 69: 69: marvin04.mrv 69: 69: Test 69: 69: marvin08.mrv 69: 69: Test 69: 69: marvin09.mrv 69: 69: Test 69: 69: marvin11.mrv 69: 69: Test 69: 69: marvin05.mrv 69: 69: Test 69: 69: EmptyRxn.mrv 69: 69: [20:40:12] initialization failed 69: Test 69: 69: RxnNoCoords.mrv 69: 69: Test 69: 69: mrvValenceZero.mrv 69: 69: Test 69: 69: condition_coordinates_mpoint.mrv 69: 69: Test 69: 69: marvin01.mrv 69: 69: Test 69: 69: aspirineSynthesisWithAttributes.mrv 69: 69: Test 69: 69: marvin01.mrv 69: 69: Test 69: 69: NewChiralTest 69: 69: Test 69: 69: NewChiralTest 69: 69: Test 69: 69: NewChiralTestNoChiral 69: 69: Test 69: 69: NewChiralTestNoChiral 69: 69: Test 69: 69: NewChiralTest2 69: 69: Test 69: 69: NewChiralTest2 69: 69: Test 69: 69: NewChiralTest2AllChiral 69: 69: Test 69: 69: NewChiralTest2AllChiral 69: 69: Test 69: 69: Vendor839 69: 69: Test 69: 69: DoubleBondChain 69: 69: Test 69: 69: Na_Mg_Al_OH 69: 69: Test 69: 69: Pb 69: 69: Test 69: 69: O_Mg_Si 69: 69: Test 69: 69: SquiggleBond 69: 69: Test 69: 69: BigMacrocycle 69: 69: Test 69: 69: Smiles1 69: 67/243 Test #69: testMrvToMol ........................... Passed 0.50 sec test 71 Start 71: testAtropisomers 71: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testAtropisomers 71: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 71: Test timeout computed to be: 1500 71: [20:40:12] ---- Running with POSIX locale ----- 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 70: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 70: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 70: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 70: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 70: [20:40:12] deprecated group abbreviation ignored on line 24 70: smiles: [1*]c1c([2*])c([3*])c([4*])c(-c2c([9*])oc3c([8*])c([7*])c([6*])c([5*])c3c2=O)c1[10*] 70: [20:40:12] 70: 70: **** 70: Post-condition Violation 70: Element 'Mv' not found 70: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 70: Failed Expression: anum > -1 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# 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 70: 3# 0x0000FFFF821E0510 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 70: 4# 0x0000FFFF821F2360 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 70: 5# 0x0000FFFF821F3214 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 70: 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 70: 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 70: 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 70: 9# 0x0000AAAAB08FB7AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 10# 0x0000AAAAB096C5BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 11# 0x0000AAAAB08D5FB8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 12# 0x0000FFFF8188229C in /lib/aarch64-linux-gnu/libc.so.6 70: 13# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 70: 14# 0x0000AAAAB08D6230 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: ---------- 70: **** 70: 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 71: [20:40:12] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 71: [20:40:12] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 71: [20:40:13] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 71: [20:40:13] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 70: [20:40:13] 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: [20:40:13] 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: Atropisomers- 1 hits 3 misses 71: Final results: 71: Found atropisomers in TestMultInSDF.sdf - 1 hits 4 misses 68/243 Test #71: testAtropisomers ....................... Passed 0.16 sec test 72 Start 72: testSquiggleDoubleBonds 72: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testSquiggleDoubleBonds 72: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 72: Test timeout computed to be: 1500 72: Randomness seeded to: 696825599 72: =============================================================================== 72: All tests passed (15 assertions in 3 test cases) 72: 69/243 Test #72: testSquiggleDoubleBonds ................ Passed 0.02 sec test 73 Start 73: testMolSupplier 73: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testMolSupplier 73: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 73: Test timeout computed to be: 1500 73: [20:40:13] 73: ----------------------------------------- 70: ---------------------------------- 70: ---------------------------------- 70: [20:40:13] 70: 70: **** 70: Pre-condition Violation 70: rlabel out of range for MDL files 70: Violation occurred on line 868 in file ./Code/GraphMol/Atom.cpp 70: Failed Expression: rlabel >= 0 && rlabel < 100 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# RDKit::setAtomRLabel(RDKit::Atom*, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 70: 3# 0x0000AAAAB08DCED8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 4# 0x0000AAAAB096C61C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 5# 0x0000AAAAB08D5FB8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 6# 0x0000FFFF8188229C in /lib/aarch64-linux-gnu/libc.so.6 70: 7# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 70: 8# 0x0000AAAAB08D6230 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: ---------- 70: **** 70: 73: [20:40:13] Ignoring invalid chirality label: '2_bad_chirality' 70: [20:40:13] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 73: [20:40:13] Ignoring invalid chirality label: '2_bad_chirality' 73: [20:40:13] Finished: testMolSup() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testRandMolSup() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testSmilesSup() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] ------------------------------------------------------ 73: [20:40:13] SMILES Parse Error: syntax error while parsing: fail 73: [20:40:13] SMILES Parse Error: check for mistakes around position 1: 73: [20:40:13] fail 73: [20:40:13] ^ 73: [20:40:13] SMILES Parse Error: Failed parsing SMILES 'fail' for input: 'fail' 73: [20:40:13] ERROR: Smiles parse error on line 3 73: [20:40:13] ERROR: Cannot create molecule from : 'fail' 73: [20:40:13] ------------------------------------------------------ 73: [20:40:13] ------------------------------------------------------ 73: [20:40:13] >>> This may result in an infinite loop. It should finish almost immediately: 73: [20:40:13] <<< done. 73: [20:40:13] Finished: testSmilesSupFromText() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testSmilesWriter() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testSDWriter() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testSDSupplierEnding() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testSuppliersEmptyFile() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testCisTrans() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testStereoRound() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [20:40:13] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [20:40:13] Finished: testIssue226() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testTDTSupplier1() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testTDTSupplier2() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testTDTSupplier3() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testSDSupplierFromText() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] ERROR: Problems encountered parsing data fields 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] ERROR: Problems encountered parsing data fields 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Spurious data before the first property will be ignored 73: [20:40:13] Property will be truncated after the first blank line 73: [20:40:13] Property will be truncated after the first blank line 73: [20:40:13] Property will be truncated after the first blank line 73: [20:40:13] Finished: testSDSupplierStrLax1() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] ERROR: Problems encountered parsing data fields 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Property will be truncated after the first blank line 73: [20:40:13] Finished: testSDSupplierStrLax2() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] ERROR: Problems encountered parsing data fields 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] ERROR: Problems encountered parsing data fields 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Spurious data before the first property will be ignored 73: [20:40:13] Property will be truncated after the first blank line 73: [20:40:13] Property will be truncated after the first blank line 73: [20:40:13] Property will be truncated after the first blank line 73: [20:40:13] Finished: testSDSupplierFromTextStrLax1() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] ERROR: Problems encountered parsing data fields 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Property will be truncated after the first blank line 73: [20:40:13] Finished: testSDSupplierFromTextStrLax2() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testIssue265() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] ERROR: End of data field name not found 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Explicit valence for atom # 0 F, 2, is greater than permitted 73: [20:40:13] ERROR: Could not sanitize molecule ending on line 16 73: [20:40:13] ERROR: Explicit valence for atom # 0 F, 2, is greater than permitted 73: [20:40:13] ERROR: Atom line too short: ' 1 2 1 0 0 0 0' on line 12 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] ERROR: Bond line too short: 'M END' on line 18 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Finished: testSDErrorHandling() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testIssue381() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testSetStreamIndices() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testMixIterAndRandom() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: build: 73: [20:40:13] Finished: testRemoveHs() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testGetItemText() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 70: [20:40:13] SMARTS Parse Error: syntax error while parsing: MyDogHasFleas 70: [20:40:13] SMARTS Parse Error: check for mistakes around position 1: 70: [20:40:13] MyDogHasFleas 70: [20:40:13] ^ 70: [20:40:13] SMARTS Parse Error: Failed parsing SMARTS 'MyDogHasFleas' for input: 'MyDogHasFleas' 73: [20:40:13] Finished: testForwardSDSupplier() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testMissingCRSDSupplier() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testIssue3482695() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] ERROR: Cannot convert 'foo' to unsigned int on line 557 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Finished: testIssue3525673() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testBlankLinesInProps() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testSkipLines() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testGitHub23() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testGitHub88() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testGitHub2285() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 73: [20:40:13] ERROR: Smiles parse error on line 1 73: [20:40:13] ERROR: Cannot create molecule from : 'c1ccccc' 73: [20:40:13] SMILES Parse Error: extra open parentheses while parsing: C(C 73: [20:40:13] SMILES Parse Error: check for mistakes around position 2: 73: [20:40:13] C(C 73: [20:40:13] ~^ 73: [20:40:13] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 73: [20:40:13] ERROR: Smiles parse error on line 3 73: [20:40:13] ERROR: Cannot create molecule from : 'C(C' 73: [20:40:13] Explicit valence for atom # 1 C, 5, is greater than permitted 73: [20:40:13] ERROR: Could not sanitize molecule on line 5 73: [20:40:13] ERROR: Explicit valence for atom # 1 C, 5, is greater than permitted 73: [20:40:13] Explicit valence for atom # 1 F, 2, is greater than permitted 73: [20:40:13] ERROR: Could not sanitize molecule ending on line 21 73: [20:40:13] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 73: [20:40:13] Explicit valence for atom # 1 F, 2, is greater than permitted 73: [20:40:13] ERROR: Could not sanitize molecule ending on line 21 73: [20:40:13] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 73: [20:40:13] Explicit valence for atom # 1 F, 2, is greater than permitted 73: [20:40:13] ERROR: Could not sanitize molecule ending on line 21 73: [20:40:13] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 73: [20:40:13] ERROR: Atom line too short: ' -9.6' on line 28 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Explicit valence for atom # 1 F, 2, is greater than permitted 73: [20:40:13] ERROR: Could not sanitize molecule ending on line 21 73: [20:40:13] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 73: [20:40:13] ERROR: Atom line too short: ' -9.6' on line 28 73: [20:40:13] ERROR: moving to the beginning of the next molecule 73: [20:40:13] Finished: testGitHub2479() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Ignoring invalid chirality label: '7_S_8_9_6_10' 73: [20:40:13] Finished: testGitHub2881() 73: [20:40:13] ----------------------------------------- 73: 73: [20:40:13] ----------------------------------------- 73: [20:40:13] Finished: testGitHub3517() 73: [20:40:13] ----------------------------------------- 73: 70/243 Test #73: testMolSupplier ........................ Passed 0.18 sec test 74 Start 74: testGeneralFileReader 74: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testGeneralFileReader 74: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 74: Test timeout computed to be: 1500 70: [20:40:13] Empty atom list: 'M ALS 1 0 F' on line 8. 70: C 70: [20:40:13] ------------------------------------- 70: [20:40:13] Test multithreading Locale Switching 74: [20:40:13] 74: ----------------------------------------- 74: [20:40:13] Finished: testDetermineFormat() 74: [20:40:13] ----------------------------------------- 74: 74: [20:40:13] 74: ----------------------------------------- 70: [20:40:13] Test multithreading (Done) 70: [20:40:13] ------------------------------------- 70: *************************************** 70: *************************************** 70: [20:40:13] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 70: [20:40:13] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 74: [20:40:13] Finished: testSdf() 74: [20:40:13] ----------------------------------------- 74: 74: [20:40:13] 74: ----------------------------------------- 74: [20:40:13] Finished: testSmi() 74: [20:40:13] ----------------------------------------- 74: 74: [20:40:13] 74: ----------------------------------------- 70: [20:40:13] bond with order 0 found on line 7. This is not part of the MDL specification. 70: [20:40:13] Skipping unrecognized collection type at line 26: MDLV30/HILITE BONDS=(1 7) 70: [20:40:13] Skipping unrecognized collection type at line 27: MDLV30/HILITE ATOMS=(1 7) 70: [20:40:13] 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: generating smiles 70: 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 70: converting back 70: check isomorphism 74: [20:40:13] Finished: testMae() 74: [20:40:13] ----------------------------------------- 74: 74: [20:40:13] 74: ----------------------------------------- 74: [20:40:13] Finished: testTdt() 74: [20:40:13] ----------------------------------------- 74: 71/243 Test #74: testGeneralFileReader .................. Passed 0.06 sec test 75 Start 75: testMultithreadedMolSupplier 75: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testMultithreadedMolSupplier 75: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 75: Test timeout computed to be: 1500 75: [20:40:13] 75: ----------------------------------------- 70: [20:40:13] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 70: [20:40:13] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 70: [20:40:13] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 70: [20:40:13] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 70: [20:40:13] deprecated group abbreviation ignored on line 24 70: smiles: [1*]c1c([2*])c([3*])c([4*])c(-c2c([9*])oc3c([8*])c([7*])c([6*])c([5*])c3c2=O)c1[10*] 70: [20:40:13] 70: 70: **** 70: Post-condition Violation 70: Element 'Mv' not found 70: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 70: Failed Expression: anum > -1 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# 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 70: 3# 0x0000FFFF821E0510 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 70: 4# 0x0000FFFF821F2360 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 70: 5# 0x0000FFFF821F3214 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 70: 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 70: 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 70: 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 70: 9# 0x0000AAAAB08FB7AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 10# 0x0000AAAAB096C5BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 11# 0x0000AAAAB08D602C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 12# 0x0000FFFF8188229C in /lib/aarch64-linux-gnu/libc.so.6 70: 13# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 70: 14# 0x0000AAAAB08D6230 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: ---------- 70: **** 70: 70: [20:40:13] 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: [20:40:13] 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: ---------------------------------- 70: ---------------------------------- 70: [20:40:13] 70: 70: **** 70: Pre-condition Violation 70: rlabel out of range for MDL files 70: Violation occurred on line 868 in file ./Code/GraphMol/Atom.cpp 70: Failed Expression: rlabel >= 0 && rlabel < 100 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# RDKit::setAtomRLabel(RDKit::Atom*, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 70: 3# 0x0000AAAAB08DCED8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 4# 0x0000AAAAB096C61C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 5# 0x0000AAAAB08D602C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: 6# 0x0000FFFF8188229C in /lib/aarch64-linux-gnu/libc.so.6 70: 7# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 70: 8# 0x0000AAAAB08D6230 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 70: ---------- 70: **** 70: 70: [20:40:13] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 70: [20:40:13] SMARTS Parse Error: syntax error while parsing: MyDogHasFleas 70: [20:40:13] SMARTS Parse Error: check for mistakes around position 1: 70: [20:40:13] MyDogHasFleas 70: [20:40:13] ^ 70: [20:40:13] SMARTS Parse Error: Failed parsing SMARTS 'MyDogHasFleas' for input: 'MyDogHasFleas' 70: [20:40:13] Empty atom list: 'M ALS 1 0 F' on line 8. 72/243 Test #70: fileParsersTest1 ....................... Passed 1.47 sec test 76 Start 76: testMolWriter 76: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testMolWriter 76: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 76: Test timeout computed to be: 1500 76: [20:40:14] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 76: 0.40201265 0.40201265 76: -0.13299436 -0.13299436 76: 1.00000017 1.00000017 76: 0.8762226 0.8762226 76: 0.9973909 0.9973909 76: 1.00000003 1.00000003 76: 0.36613799 0.36613799 76: 2.1107185 2.1107185 76: 0.99999982 0.99999982 76: 2.48696157 2.48696157 76: 1.00479935 1.00479935 76: 0.99999999 0.99999999 76: 3.03311841 3.03311841 76: 2.23739955 2.23739955 76: 1.0000001 1.0000001 76: 3.00772337 3.00772337 76: 0.37399294 0.37399294 76: 2.07713325 2.07713325 76: 3.0077234 3.0077234 76: 0.37399312 0.37399312 76: -0.07713336 -0.07713336 76: [20:40:14] bond with order 0 found on line 11. This is not part of the MDL specification. 76: [20:40:14] bond with order 0 found on line 16. This is not part of the MDL specification. 73/243 Test #76: testMolWriter .......................... Passed 0.14 sec test 77 Start 77: testTplParser 77: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testTplParser 77: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 77: Test timeout computed to be: 1500 74/243 Test #77: testTplParser .......................... Passed 0.02 sec test 78 Start 78: testMol2ToMol 78: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testMol2ToMol 78: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 78: Test timeout computed to be: 1500 75/243 Test #78: testMol2ToMol .......................... Passed 0.02 sec test 79 Start 79: testSequence 79: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testSequence 79: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 79: Test timeout computed to be: 1500 79: Sequence: GREG 79: HELM: PEPTIDE1{G.R.E.G}$$$$ 79: Smiles: N=C(N)NCCC[C@H](NC(=O)CN)C(=O)N[C@@H](CCC(=O)O)C(=O)NCC(=O)O 79: PDB: 79: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 23 OE1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 24 OE2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 79: CONECT 1 2 79: CONECT 2 3 79: CONECT 3 4 4 5 79: CONECT 5 6 79: CONECT 6 7 9 79: CONECT 7 8 8 16 79: CONECT 9 10 79: CONECT 10 11 79: CONECT 11 12 79: CONECT 12 13 79: CONECT 13 14 14 15 79: CONECT 16 17 79: CONECT 17 18 20 79: CONECT 18 19 19 25 79: CONECT 20 21 79: CONECT 21 22 79: CONECT 22 23 23 24 79: CONECT 25 26 79: CONECT 26 27 79: CONECT 27 28 28 29 79: END 79: 79: Sequence: TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN 79: 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}$$$$ 79: 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 79: PDB: 79: ATOM 1 N THR A 1 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 2 CA THR A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 3 C THR A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 4 O THR A 1 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 5 CB THR A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 6 OG1 THR A 1 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 7 CG2 THR A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 8 N THR A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 9 CA THR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 10 C THR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 11 O THR A 2 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 12 CB THR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 13 OG1 THR A 2 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 14 CG2 THR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 15 N CYS A 3 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 16 CA CYS A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 17 C CYS A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 18 O CYS A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 19 CB CYS A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 20 SG CYS A 3 0.000 0.000 0.000 1.00 0.00 S 79: ATOM 21 N CYS A 4 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 22 CA CYS A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 23 C CYS A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 24 O CYS A 4 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 25 CB CYS A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 26 SG CYS A 4 0.000 0.000 0.000 1.00 0.00 S 79: ATOM 27 N PRO A 5 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 28 CA PRO A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 29 C PRO A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 30 O PRO A 5 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 31 CB PRO A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 32 CG PRO A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 33 CD PRO A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 34 N SER A 6 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 35 CA SER A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 36 C SER A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 37 O SER A 6 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 38 CB SER A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 39 OG SER A 6 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 40 N ILE A 7 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 41 CA ILE A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 42 C ILE A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 43 O ILE A 7 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 44 CB ILE A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 45 CG1 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 46 CG2 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 47 CD1 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 48 N VAL A 8 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 49 CA VAL A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 50 C VAL A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 51 O VAL A 8 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 52 CB VAL A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 53 CG1 VAL A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 54 CG2 VAL A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 55 N ALA A 9 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 56 CA ALA A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 57 C ALA A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 58 O ALA A 9 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 59 CB ALA A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 60 N ARG A 10 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 61 CA ARG A 10 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 62 C ARG A 10 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 63 O ARG A 10 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 64 CB ARG A 10 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 65 CG ARG A 10 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 66 CD ARG A 10 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 67 NE ARG A 10 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 68 CZ ARG A 10 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 69 NH1 ARG A 10 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 70 NH2 ARG A 10 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 71 N SER A 11 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 72 CA SER A 11 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 73 C SER A 11 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 74 O SER A 11 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 75 CB SER A 11 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 76 OG SER A 11 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 77 N ASN A 12 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 78 CA ASN A 12 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 79 C ASN A 12 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 80 O ASN A 12 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 81 CB ASN A 12 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 82 CG ASN A 12 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 83 OD1 ASN A 12 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 84 ND2 ASN A 12 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 85 N PHE A 13 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 86 CA PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 87 C PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 88 O PHE A 13 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 89 CB PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 90 CG PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 91 CD1 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 92 CD2 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 93 CE1 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 94 CE2 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 95 CZ PHE A 13 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 96 N ASN A 14 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 97 CA ASN A 14 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 98 C ASN A 14 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 99 O ASN A 14 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 100 CB ASN A 14 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 101 CG ASN A 14 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 102 OD1 ASN A 14 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 103 ND2 ASN A 14 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 104 N VAL A 15 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 105 CA VAL A 15 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 106 C VAL A 15 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 107 O VAL A 15 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 108 CB VAL A 15 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 109 CG1 VAL A 15 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 110 CG2 VAL A 15 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 111 N CYS A 16 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 112 CA CYS A 16 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 113 C CYS A 16 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 114 O CYS A 16 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 115 CB CYS A 16 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 116 SG CYS A 16 0.000 0.000 0.000 1.00 0.00 S 79: ATOM 117 N ARG A 17 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 118 CA ARG A 17 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 119 C ARG A 17 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 120 O ARG A 17 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 121 CB ARG A 17 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 122 CG ARG A 17 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 123 CD ARG A 17 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 124 NE ARG A 17 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 125 CZ ARG A 17 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 126 NH1 ARG A 17 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 127 NH2 ARG A 17 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 128 N LEU A 18 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 129 CA LEU A 18 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 130 C LEU A 18 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 131 O LEU A 18 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 132 CB LEU A 18 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 133 CG LEU A 18 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 134 CD1 LEU A 18 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 135 CD2 LEU A 18 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 136 N PRO A 19 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 137 CA PRO A 19 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 138 C PRO A 19 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 139 O PRO A 19 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 140 CB PRO A 19 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 141 CG PRO A 19 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 142 CD PRO A 19 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 143 N GLY A 20 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 144 CA GLY A 20 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 145 C GLY A 20 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 146 O GLY A 20 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 147 N THR A 21 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 148 CA THR A 21 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 149 C THR A 21 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 150 O THR A 21 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 151 CB THR A 21 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 152 OG1 THR A 21 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 153 CG2 THR A 21 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 154 N PRO A 22 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 155 CA PRO A 22 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 156 C PRO A 22 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 157 O PRO A 22 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 158 CB PRO A 22 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 159 CG PRO A 22 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 160 CD PRO A 22 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 161 N GLU A 23 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 162 CA GLU A 23 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 163 C GLU A 23 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 164 O GLU A 23 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 165 CB GLU A 23 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 166 CG GLU A 23 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 167 CD GLU A 23 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 168 OE1 GLU A 23 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 169 OE2 GLU A 23 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 170 N ALA A 24 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 171 CA ALA A 24 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 172 C ALA A 24 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 173 O ALA A 24 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 174 CB ALA A 24 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 175 N ILE A 25 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 176 CA ILE A 25 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 177 C ILE A 25 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 178 O ILE A 25 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 179 CB ILE A 25 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 180 CG1 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 181 CG2 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 182 CD1 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 183 N CYS A 26 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 184 CA CYS A 26 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 185 C CYS A 26 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 186 O CYS A 26 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 187 CB CYS A 26 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 188 SG CYS A 26 0.000 0.000 0.000 1.00 0.00 S 79: ATOM 189 N ALA A 27 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 190 CA ALA A 27 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 191 C ALA A 27 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 192 O ALA A 27 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 193 CB ALA A 27 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 194 N THR A 28 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 195 CA THR A 28 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 196 C THR A 28 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 197 O THR A 28 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 198 CB THR A 28 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 199 OG1 THR A 28 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 200 CG2 THR A 28 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 201 N TYR A 29 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 202 CA TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 203 C TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 204 O TYR A 29 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 205 CB TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 206 CG TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 207 CD1 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 208 CD2 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 209 CE1 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 210 CE2 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 211 CZ TYR A 29 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 212 OH TYR A 29 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 213 N THR A 30 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 214 CA THR A 30 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 215 C THR A 30 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 216 O THR A 30 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 217 CB THR A 30 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 218 OG1 THR A 30 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 219 CG2 THR A 30 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 220 N GLY A 31 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 221 CA GLY A 31 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 222 C GLY A 31 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 223 O GLY A 31 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 224 N CYS A 32 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 225 CA CYS A 32 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 226 C CYS A 32 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 227 O CYS A 32 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 228 CB CYS A 32 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 229 SG CYS A 32 0.000 0.000 0.000 1.00 0.00 S 79: ATOM 230 N ILE A 33 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 231 CA ILE A 33 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 232 C ILE A 33 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 233 O ILE A 33 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 234 CB ILE A 33 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 235 CG1 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 236 CG2 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 237 CD1 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 238 N ILE A 34 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 239 CA ILE A 34 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 240 C ILE A 34 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 241 O ILE A 34 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 242 CB ILE A 34 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 243 CG1 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 244 CG2 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 245 CD1 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 246 N ILE A 35 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 247 CA ILE A 35 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 248 C ILE A 35 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 249 O ILE A 35 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 250 CB ILE A 35 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 251 CG1 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 252 CG2 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 253 CD1 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 254 N PRO A 36 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 255 CA PRO A 36 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 256 C PRO A 36 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 257 O PRO A 36 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 258 CB PRO A 36 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 259 CG PRO A 36 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 260 CD PRO A 36 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 261 N GLY A 37 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 262 CA GLY A 37 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 263 C GLY A 37 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 264 O GLY A 37 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 265 N ALA A 38 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 266 CA ALA A 38 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 267 C ALA A 38 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 268 O ALA A 38 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 269 CB ALA A 38 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 270 N THR A 39 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 271 CA THR A 39 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 272 C THR A 39 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 273 O THR A 39 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 274 CB THR A 39 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 275 OG1 THR A 39 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 276 CG2 THR A 39 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 277 N CYS A 40 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 278 CA CYS A 40 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 279 C CYS A 40 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 280 O CYS A 40 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 281 CB CYS A 40 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 282 SG CYS A 40 0.000 0.000 0.000 1.00 0.00 S 79: ATOM 283 N PRO A 41 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 284 CA PRO A 41 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 285 C PRO A 41 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 286 O PRO A 41 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 287 CB PRO A 41 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 288 CG PRO A 41 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 289 CD PRO A 41 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 290 N GLY A 42 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 291 CA GLY A 42 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 292 C GLY A 42 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 293 O GLY A 42 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 294 N ASP A 43 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 295 CA ASP A 43 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 296 C ASP A 43 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 297 O ASP A 43 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 298 CB ASP A 43 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 299 CG ASP A 43 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 300 OD1 ASP A 43 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 301 OD2 ASP A 43 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 302 N TYR A 44 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 303 CA TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 304 C TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 305 O TYR A 44 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 306 CB TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 307 CG TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 308 CD1 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 309 CD2 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 310 CE1 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 311 CE2 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 312 CZ TYR A 44 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 313 OH TYR A 44 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 314 N ALA A 45 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 315 CA ALA A 45 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 316 C ALA A 45 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 317 O ALA A 45 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 318 CB ALA A 45 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 319 N ASN A 46 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 320 CA ASN A 46 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 321 C ASN A 46 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 322 O ASN A 46 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 323 CB ASN A 46 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 324 CG ASN A 46 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 325 OD1 ASN A 46 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 326 ND2 ASN A 46 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 327 OXT ASN A 46 0.000 0.000 0.000 1.00 0.00 O 79: CONECT 1 2 79: CONECT 2 3 5 79: CONECT 3 4 4 8 79: CONECT 5 6 7 79: CONECT 8 9 79: CONECT 9 10 12 79: CONECT 10 11 11 15 79: CONECT 12 13 14 79: CONECT 15 16 79: CONECT 16 17 19 79: CONECT 17 18 18 21 79: CONECT 19 20 79: CONECT 21 22 79: CONECT 22 23 25 79: CONECT 23 24 24 27 79: CONECT 25 26 79: CONECT 27 28 33 79: CONECT 28 29 31 79: CONECT 29 30 30 34 79: CONECT 31 32 79: CONECT 32 33 79: CONECT 34 35 79: CONECT 35 36 38 79: CONECT 36 37 37 40 79: CONECT 38 39 79: CONECT 40 41 79: CONECT 41 42 44 79: CONECT 42 43 43 48 79: CONECT 44 45 46 79: CONECT 46 47 79: CONECT 48 49 79: CONECT 49 50 52 79: CONECT 50 51 51 55 79: CONECT 52 53 54 79: CONECT 55 56 79: CONECT 56 57 59 79: CONECT 57 58 58 60 79: CONECT 60 61 79: CONECT 61 62 64 79: CONECT 62 63 63 71 79: CONECT 64 65 79: CONECT 65 66 79: CONECT 66 67 79: CONECT 67 68 79: CONECT 68 69 69 70 79: CONECT 71 72 79: CONECT 72 73 75 79: CONECT 73 74 74 77 79: CONECT 75 76 79: CONECT 77 78 79: CONECT 78 79 81 79: CONECT 79 80 80 85 79: CONECT 81 82 79: CONECT 82 83 83 84 79: CONECT 85 86 79: CONECT 86 87 89 79: CONECT 87 88 88 96 79: CONECT 89 90 79: CONECT 90 91 91 92 79: CONECT 91 93 79: CONECT 92 94 94 79: CONECT 93 95 95 79: CONECT 94 95 79: CONECT 96 97 79: CONECT 97 98 100 79: CONECT 98 99 99 104 79: CONECT 100 101 79: CONECT 101 102 102 103 79: CONECT 104 105 79: CONECT 105 106 108 79: CONECT 106 107 107 111 79: CONECT 108 109 110 79: CONECT 111 112 79: CONECT 112 113 115 79: CONECT 113 114 114 117 79: CONECT 115 116 79: CONECT 117 118 79: CONECT 118 119 121 79: CONECT 119 120 120 128 79: CONECT 121 122 79: CONECT 122 123 79: CONECT 123 124 79: CONECT 124 125 79: CONECT 125 126 126 127 79: CONECT 128 129 79: CONECT 129 130 132 79: CONECT 130 131 131 136 79: CONECT 132 133 79: CONECT 133 134 135 79: CONECT 136 137 142 79: CONECT 137 138 140 79: CONECT 138 139 139 143 79: CONECT 140 141 79: CONECT 141 142 79: CONECT 143 144 79: CONECT 144 145 79: CONECT 145 146 146 147 79: CONECT 147 148 79: CONECT 148 149 151 79: CONECT 149 150 150 154 79: CONECT 151 152 153 79: CONECT 154 155 160 79: CONECT 155 156 158 79: CONECT 156 157 157 161 79: CONECT 158 159 79: CONECT 159 160 79: CONECT 161 162 79: CONECT 162 163 165 79: CONECT 163 164 164 170 79: CONECT 165 166 79: CONECT 166 167 79: CONECT 167 168 168 169 79: CONECT 170 171 79: CONECT 171 172 174 79: CONECT 172 173 173 175 79: CONECT 175 176 79: CONECT 176 177 179 79: CONECT 177 178 178 183 79: CONECT 179 180 181 79: CONECT 181 182 79: CONECT 183 184 79: CONECT 184 185 187 79: CONECT 185 186 186 189 79: CONECT 187 188 79: CONECT 189 190 79: CONECT 190 191 193 79: CONECT 191 192 192 194 79: CONECT 194 195 79: CONECT 195 196 198 79: CONECT 196 197 197 201 79: CONECT 198 199 200 79: CONECT 201 202 79: CONECT 202 203 205 79: CONECT 203 204 204 213 79: CONECT 205 206 79: CONECT 206 207 207 208 79: CONECT 207 209 79: CONECT 208 210 210 79: CONECT 209 211 211 79: CONECT 210 211 79: CONECT 211 212 79: CONECT 213 214 79: CONECT 214 215 217 79: CONECT 215 216 216 220 79: CONECT 217 218 219 79: CONECT 220 221 79: CONECT 221 222 79: CONECT 222 223 223 224 79: CONECT 224 225 79: CONECT 225 226 228 79: CONECT 226 227 227 230 79: CONECT 228 229 79: CONECT 230 231 79: CONECT 231 232 234 79: CONECT 232 233 233 238 79: CONECT 234 235 236 79: CONECT 236 237 79: CONECT 238 239 79: CONECT 239 240 242 79: CONECT 240 241 241 246 79: CONECT 242 243 244 79: CONECT 244 245 79: CONECT 246 247 79: CONECT 247 248 250 79: CONECT 248 249 249 254 79: CONECT 250 251 252 79: CONECT 252 253 79: CONECT 254 255 260 79: CONECT 255 256 258 79: CONECT 256 257 257 261 79: CONECT 258 259 79: CONECT 259 260 79: CONECT 261 262 79: CONECT 262 263 79: CONECT 263 264 264 265 79: CONECT 265 266 79: CONECT 266 267 269 79: CONECT 267 268 268 270 79: CONECT 270 271 79: CONECT 271 272 274 79: CONECT 272 273 273 277 79: CONECT 274 275 276 79: CONECT 277 278 79: CONECT 278 279 281 79: CONECT 279 280 280 283 79: CONECT 281 282 79: CONECT 283 284 289 79: CONECT 284 285 287 79: CONECT 285 286 286 290 79: CONECT 287 288 79: CONECT 288 289 79: CONECT 290 291 79: CONECT 291 292 79: CONECT 292 293 293 294 79: CONECT 294 295 79: CONECT 295 296 298 79: CONECT 296 297 297 302 79: CONECT 298 299 79: CONECT 299 300 300 301 79: CONECT 302 303 79: CONECT 303 304 306 79: CONECT 304 305 305 314 79: CONECT 306 307 79: CONECT 307 308 308 309 79: CONECT 308 310 79: CONECT 309 311 311 79: CONECT 310 312 312 79: CONECT 311 312 79: CONECT 312 313 79: CONECT 314 315 79: CONECT 315 316 318 79: CONECT 316 317 317 319 79: CONECT 319 320 79: CONECT 320 321 323 79: CONECT 321 322 322 327 79: CONECT 323 324 79: CONECT 324 325 325 326 79: END 79: 79: Sequence: GREG 79: HELM: PEPTIDE1{G.R.E.G}$$$$ 79: Smiles: N=C(N)NCCC[C@H](NC(=O)CN)C(=O)N[C@@H](CCC(=O)O)C(=O)NCC(=O)O 79: PDB: 79: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 23 OE1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 24 OE2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 79: CONECT 1 2 79: CONECT 2 3 79: CONECT 3 4 4 5 79: CONECT 5 6 79: CONECT 6 7 9 79: CONECT 7 8 8 16 79: CONECT 9 10 79: CONECT 10 11 79: CONECT 11 12 79: CONECT 12 13 79: CONECT 13 14 14 15 79: CONECT 16 17 79: CONECT 17 18 20 79: CONECT 18 19 19 25 79: CONECT 20 21 79: CONECT 21 22 79: CONECT 22 23 23 24 79: CONECT 25 26 79: CONECT 26 27 79: CONECT 27 28 28 29 79: END 79: 79: Sequence: CYIQNCPLG 79: HELM: PEPTIDE1{C.Y.I.Q.N.C.P.L.G.[am]}$PEPTIDE1,PEPTIDE1,1:R3-6:R3$$$ 79: 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 79: PDB: 79: ATOM 1 N CYS A 1 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 2 CA CYS A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 3 C CYS A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 4 O CYS A 1 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 5 CB CYS A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 6 SG CYS A 1 0.000 0.000 0.000 1.00 0.00 S 79: ATOM 7 N TYR A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 8 CA TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 9 C TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 10 O TYR A 2 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 11 CB TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 12 CG TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 13 CD1 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 14 CD2 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 15 CE1 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 16 CE2 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 17 CZ TYR A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 18 OH TYR A 2 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 19 N ILE A 3 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 20 CA ILE A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 21 C ILE A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 22 O ILE A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 23 CB ILE A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 24 CG1 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 25 CG2 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 26 CD1 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 27 N GLN A 4 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 28 CA GLN A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 29 C GLN A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 30 O GLN A 4 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 31 CB GLN A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 32 CG GLN A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 33 CD GLN A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 34 OE1 GLN A 4 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 35 NE2 GLN A 4 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 36 N ASN A 5 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 37 CA ASN A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 38 C ASN A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 39 O ASN A 5 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 40 CB ASN A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 41 CG ASN A 5 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 42 OD1 ASN A 5 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 43 ND2 ASN A 5 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 44 N CYS A 6 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 45 CA CYS A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 46 C CYS A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 47 O CYS A 6 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 48 CB CYS A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 49 SG CYS A 6 0.000 0.000 0.000 1.00 0.00 S 79: ATOM 50 N PRO A 7 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 51 CA PRO A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 52 C PRO A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 53 O PRO A 7 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 54 CB PRO A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 55 CG PRO A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 56 CD PRO A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 57 N LEU A 8 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 58 CA LEU A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 59 C LEU A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 60 O LEU A 8 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 61 CB LEU A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 62 CG LEU A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 63 CD1 LEU A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 64 CD2 LEU A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 65 N GLY A 9 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 66 CA GLY A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 67 C GLY A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 68 O GLY A 9 0.000 0.000 0.000 1.00 0.00 O 79: HETATM 69 N NH2 A 10 0.000 0.000 0.000 1.00 0.00 N 79: CONECT 1 2 79: CONECT 2 3 5 79: CONECT 3 4 4 7 79: CONECT 5 6 79: CONECT 6 49 79: CONECT 7 8 79: CONECT 8 9 11 79: CONECT 9 10 10 19 79: CONECT 11 12 79: CONECT 12 13 13 14 79: CONECT 13 15 79: CONECT 14 16 16 79: CONECT 15 17 17 79: CONECT 16 17 79: CONECT 17 18 79: CONECT 19 20 79: CONECT 20 21 23 79: CONECT 21 22 22 27 79: CONECT 23 24 25 79: CONECT 25 26 79: CONECT 27 28 79: CONECT 28 29 31 79: CONECT 29 30 30 36 79: CONECT 31 32 79: CONECT 32 33 79: CONECT 33 34 34 35 79: CONECT 36 37 79: CONECT 37 38 40 79: CONECT 38 39 39 44 79: CONECT 40 41 79: CONECT 41 42 42 43 79: CONECT 44 45 79: CONECT 45 46 48 79: CONECT 46 47 47 50 79: CONECT 48 49 79: CONECT 50 51 56 79: CONECT 51 52 54 79: CONECT 52 53 53 57 79: CONECT 54 55 79: CONECT 55 56 79: CONECT 57 58 79: CONECT 58 59 61 79: CONECT 59 60 60 65 79: CONECT 61 62 79: CONECT 62 63 64 79: CONECT 65 66 79: CONECT 66 67 79: CONECT 67 68 68 69 79: END 79: 79: Sequence: LfPVXLfPVX 79: HELM: PEPTIDE1{L.[dF].P.V.[Orn].L.[dF].P.V.[Orn]}$PEPTIDE1,PEPTIDE1,10:R2-1:R1$$$ 79: 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 79: PDB: 79: ATOM 1 N LEU A 1 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 2 CA LEU A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 3 C LEU A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 4 O LEU A 1 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 5 CB LEU A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 6 CG LEU A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 7 CD1 LEU A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 8 CD2 LEU A 1 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 9 N DPN A 2 0.000 0.000 0.000 1.00 0.00 N 79: HETATM 10 CA DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 11 C DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 12 O DPN A 2 0.000 0.000 0.000 1.00 0.00 O 79: HETATM 13 CB DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 14 CG DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 15 CD1 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 16 CD2 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 17 CE1 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 18 CE2 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 19 CZ DPN A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 20 N PRO A 3 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 21 CA PRO A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 22 C PRO A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 23 O PRO A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 24 CB PRO A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 25 CG PRO A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 26 CD PRO A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 27 N VAL A 4 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 28 CA VAL A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 29 C VAL A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 30 O VAL A 4 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 31 CB VAL A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 32 CG1 VAL A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 33 CG2 VAL A 4 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 34 N ORN A 5 0.000 0.000 0.000 1.00 0.00 N 79: HETATM 35 CA ORN A 5 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 36 C ORN A 5 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 37 O ORN A 5 0.000 0.000 0.000 1.00 0.00 O 79: HETATM 38 CB ORN A 5 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 39 CG ORN A 5 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 40 CD ORN A 5 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 41 NE ORN A 5 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 42 N LEU A 6 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 43 CA LEU A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 44 C LEU A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 45 O LEU A 6 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 46 CB LEU A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 47 CG LEU A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 48 CD1 LEU A 6 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 49 CD2 LEU A 6 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 50 N DPN A 7 0.000 0.000 0.000 1.00 0.00 N 79: HETATM 51 CA DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 52 C DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 53 O DPN A 7 0.000 0.000 0.000 1.00 0.00 O 79: HETATM 54 CB DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 55 CG DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 56 CD1 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 57 CD2 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 58 CE1 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 59 CE2 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 60 CZ DPN A 7 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 61 N PRO A 8 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 62 CA PRO A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 63 C PRO A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 64 O PRO A 8 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 65 CB PRO A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 66 CG PRO A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 67 CD PRO A 8 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 68 N VAL A 9 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 69 CA VAL A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 70 C VAL A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 71 O VAL A 9 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 72 CB VAL A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 73 CG1 VAL A 9 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 74 CG2 VAL A 9 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 75 N ORN A 10 0.000 0.000 0.000 1.00 0.00 N 79: HETATM 76 CA ORN A 10 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 77 C ORN A 10 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 78 O ORN A 10 0.000 0.000 0.000 1.00 0.00 O 79: HETATM 79 CB ORN A 10 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 80 CG ORN A 10 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 81 CD ORN A 10 0.000 0.000 0.000 1.00 0.00 C 79: HETATM 82 NE ORN A 10 0.000 0.000 0.000 1.00 0.00 N 79: CONECT 1 2 77 79: CONECT 2 3 5 79: CONECT 3 4 4 9 79: CONECT 5 6 79: CONECT 6 7 8 79: CONECT 9 10 79: CONECT 10 11 13 79: CONECT 11 12 12 20 79: CONECT 13 14 79: CONECT 14 15 15 16 79: CONECT 15 17 79: CONECT 16 18 18 79: CONECT 17 19 19 79: CONECT 18 19 79: CONECT 20 21 26 79: CONECT 21 22 24 79: CONECT 22 23 23 27 79: CONECT 24 25 79: CONECT 25 26 79: CONECT 27 28 79: CONECT 28 29 31 79: CONECT 29 30 30 34 79: CONECT 31 32 33 79: CONECT 34 35 79: CONECT 35 36 38 79: CONECT 36 37 37 42 79: CONECT 38 39 79: CONECT 39 40 79: CONECT 40 41 79: CONECT 42 43 79: CONECT 43 44 46 79: CONECT 44 45 45 50 79: CONECT 46 47 79: CONECT 47 48 49 79: CONECT 50 51 79: CONECT 51 52 54 79: CONECT 52 53 53 61 79: CONECT 54 55 79: CONECT 55 56 56 57 79: CONECT 56 58 79: CONECT 57 59 59 79: CONECT 58 60 60 79: CONECT 59 60 79: CONECT 61 62 67 79: CONECT 62 63 65 79: CONECT 63 64 64 68 79: CONECT 65 66 79: CONECT 66 67 79: CONECT 68 69 79: CONECT 69 70 72 79: CONECT 70 71 71 75 79: CONECT 72 73 74 79: CONECT 75 76 79: CONECT 76 77 79 79: CONECT 77 78 78 79: CONECT 79 80 79: CONECT 80 81 79: CONECT 81 82 79: END 79: 79: Sequence: GREG 79: HELM: PEPTIDE1{G.R.E.G}$$$$ 79: Smiles: N=C(N)NCCCC(NC(=O)CN)C(=O)NC(CCC(=O)O)C(=O)NCC(=O)O 79: PDB: 79: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 23 OD1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 24 OD2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 79: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 79: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 79: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 79: CONECT 1 2 79: CONECT 2 3 79: CONECT 3 4 4 5 79: CONECT 5 6 79: CONECT 6 7 9 79: CONECT 7 8 8 16 79: CONECT 9 10 79: CONECT 10 11 79: CONECT 11 12 79: CONECT 12 13 79: CONECT 13 14 14 15 79: CONECT 16 17 79: CONECT 17 18 20 79: CONECT 18 19 19 25 79: CONECT 20 21 79: CONECT 21 22 79: CONECT 22 23 23 24 79: CONECT 25 26 79: CONECT 26 27 79: CONECT 27 28 28 29 79: END 79: 76/243 Test #79: testSequence ........................... Passed 0.03 sec test 80 Start 80: testExtendedStereoParsing 80: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testExtendedStereoParsing 80: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 80: Test timeout computed to be: 1500 77/243 Test #80: testExtendedStereoParsing .............. Passed 0.02 sec test 81 Start 81: fileParsersCatchTest 81: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 81: Test timeout computed to be: 1500 81: Randomness seeded to: 1672609996 81: [20:40:14] SGroup SAP line too short: 'M SAP 1 1 8' on line 29 81: [20:40:14] SGroup SAP line too short: 'M SAP 1 1 8' on line 28 81: [20:40:14] Could not infer missing lvIdx on malformed SAP line for SGroup 1 81: [20:40:14] SGroup 1 is invalid and will be ignored 81: [20:40:14] SGroup SAP line too short: 'M SAP 1 1 8' on line 28 81: [20:40:14] Could not infer missing lvIdx on malformed SAP line for SGroup 1 81: [20:40:14] SGroup 1 is invalid and will be ignored 81: [20:40:14] SGroup SAP line too short: 'M SAP 1 1 8' on line 35 81: [20:40:14] SGroup SAP line too short: 'M SAP 2 1 12' on line 39 81: [20:40:14] SGroup SAP line too short: 'M SAP 1 1 8' on line 34 81: [20:40:14] SGroup SAP line too short: 'M SAP 2 1 12' on line 38 81: [20:40:14] Could not infer missing lvIdx on malformed SAP line for SGroup 1 81: [20:40:14] SGroup 1 is invalid and will be ignored 81: [20:40:14] SGroup SAP line too short: 'M SAP 1 1 8' on line 34 81: [20:40:14] SGroup SAP line too short: 'M SAP 2 1 12' on line 39 81: [20:40:14] Could not infer missing lvIdx on malformed SAP line for SGroup 1 81: [20:40:14] SGroup 1 is invalid and will be ignored 81: [20:40:14] SGroup 3 referenced on line 40 not found. 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: no bonds 81: Violation occurred on line 181 in file ./Code/GraphMol/SubstanceGroup.cpp 81: Failed Expression: !d_bonds.empty() 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 4# 0x0000FFFFB32C0800 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 7# 0x0000AAAAAE458478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 8# 0x0000AAAAAE429E84 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 16# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 17# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] SGroup 3 referenced on line 40 not found. 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: no bonds 81: Violation occurred on line 181 in file ./Code/GraphMol/SubstanceGroup.cpp 81: Failed Expression: !d_bonds.empty() 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 4# 0x0000FFFFB32C0800 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 7# 0x0000AAAAAE429F08 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 8# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 15# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 16# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] no bonds 81: [20:40:14] SGroup 1 is invalid and will be ignored 81: [20:40:14] SGroup line too short: 'M SBV 1 6' on line 42 81: [20:40:14] SGroup 1 is invalid and will be ignored 81: [20:40:14] SGroup line too short: 'M SBL 2 3 9 10' on line 46 81: [20:40:14] SGroup 2 is invalid and will be ignored 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_bondBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 5# 0x0000FFFFB32C0744 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 8# 0x0000AAAAAE458478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE42A6E4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_bondBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 5# 0x0000FFFFB32C0744 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 8# 0x0000AAAAAE42A754 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 16# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 17# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] bookmark not found 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bond is not part of the SubstanceGroup 81: Violation occurred on line 200 in file ./Code/GraphMol/SubstanceGroup.cpp 81: Failed Expression: std::find(d_bonds.begin(), d_bonds.end(), bondIdx) != d_bonds.end() 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::SubstanceGroup::getBondType(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 5# 0x0000FFFFB32C0800 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 8# 0x0000AAAAAE42A754 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 16# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 17# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] bond is not part of the SubstanceGroup 81: [20:40:14] SGroup 2 is invalid and will be ignored 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_atomBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 5# 0x0000FFFFB32C0744 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 8# 0x0000AAAAAE458478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE42A994 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_atomBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 5# 0x0000FFFFB32C0744 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 8# 0x0000AAAAAE42AA04 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 16# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 17# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] bookmark not found 81: [20:40:14] Neither beginning nor ending atoms of bond 9 is in this SubstanceGroup. 81: [20:40:14] SGroup 2 is invalid and will be ignored 81: [20:40:14] WARNING: final character of V3000 array is not ')' 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_bondBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 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 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE428920 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] WARNING: final character of V3000 array is not ')' 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_bondBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 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 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE4289A4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] bookmark not found 81: [20:40:14] SGroup 1 is invalid and will be ignored 81: [20:40:14] WARNING: final character of V3000 array is not ')' 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_atomBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 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 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE458478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE428C04 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 17# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 18# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 19# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] WARNING: final character of V3000 array is not ')' 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_atomBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 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 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE428C88 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] bookmark not found 81: [20:40:14] SGroup 1 is invalid and will be ignored 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_bondBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 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 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE458478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE428EE4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 17# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 18# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 19# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 267 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_bondBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 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 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE428F68 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] bookmark not found 81: [20:40:14] SGroup 2 is invalid and will be ignored 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_atomBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 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 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE458478 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4291C4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 17# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 18# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 19# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: bookmark not found 81: Violation occurred on line 245 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: (lu != d_atomBookmarks.end()) 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 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 81: 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 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE429248 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] bookmark not found 81: [20:40:14] SGroup 2 is invalid and will be ignored 81: [20:40:14] Explicit valence for atom # 2 O, 3, is greater than permitted 81: [20:40:14] Explicit valence for atom # 1 O, 3, is greater than permitted 81: [20:40:14] Explicit valence for atom # 1 C, 5, is greater than permitted 81: [20:40:14] sanitize [20:40:14] UNK: [20:40:14] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 81: [20:40:14] skipping block at line 7: 'BEGIN ATOM' 81: ATOM 1 CHLO CHL 0 0.000 0.000 0.000 1.00 0.00 CL 81: END 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: no stream 81: Violation occurred on line 133 in file ./Code/GraphMol/FileParsers/SDMolSupplier.cpp 81: Failed Expression: dp_inStream 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::v2::FileParsers::SDMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 3# 0x0000AAAAAE45F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 4# 0x0000AAAAAE41FBEC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 5# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 6# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 7# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 8# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 13# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: no stream 81: Violation occurred on line 187 in file ./Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp 81: Failed Expression: dp_inStream 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::v2::FileParsers::ForwardSDMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 3# 0x0000AAAAAE45F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 4# 0x0000AAAAAE41FD80 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 5# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 6# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 7# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 8# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 13# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: no stream 81: Violation occurred on line 409 in file ./Code/GraphMol/FileParsers/SmilesMolSupplier.cpp 81: Failed Expression: dp_inStream 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::v2::FileParsers::SmilesMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 3# 0x0000AAAAAE45F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 4# 0x0000AAAAAE4200A4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 5# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 6# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 7# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 8# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 13# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: no stream 81: Violation occurred on line 264 in file ./Code/GraphMol/FileParsers/TDTMolSupplier.cpp 81: Failed Expression: dp_inStream 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::v2::FileParsers::TDTMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 3# 0x0000AAAAAE45F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 4# 0x0000AAAAAE420320 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 5# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 6# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 7# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 8# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 13# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: no stream 81: Violation occurred on line 593 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 81: Failed Expression: dp_sInStream != nullptr 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::v2::FileParsers::MaeMolSupplier::next() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 3# 0x0000AAAAAE45F1DC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 4# 0x0000AAAAAE420504 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 5# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 6# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 7# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 8# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 13# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] Found a SCD/SED line with missing/empty SDT specification at line 21 81: [20:40:14] Found a SCD/SED line with missing/empty SDT specification at line 20 81: [20:40:14] BEGIN SGROUP line not found on line 14 81: [20:40:14] Unhandled CTAB feature: 'Unsupported SGroup type '' on line 18'. Molecule skipped. 81: [20:40:14] END SGROUP line not found on line 19 81: [20:40:14] END SGROUP line not found on line 21 81: [20:40:14] MRV_COORDINATE_BOND_TYPE SGroup with value 0 does not reference a query bond, ignoring. 81: [20:40:14] MRV_COORDINATE_BOND_TYPE SGroup with value 1 does not reference a query bond, ignoring. 81: [20:40:14] 81: 81: **** 81: Range Error 81: idx 81: Violation occurred on line 329 in file ./Code/GraphMol/ROMol.cpp 81: Failed Expression: 99 < 9 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::ROMol::getBondWithIdx(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 81: 3# 0x0000FFFFB32CE950 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 4# 0x0000FFFFB32CF5B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 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 81: 8# 0x0000AAAAAE4591D8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE41B5EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] molecule does not contain a bond matching the MRV_COORDINATE_BOND_TYPE SGroup for bond 99, ignoring. 81: [20:40:14] Multiple ATTCHPT values for atom 2 on line 9 81: [20:40:14] Found a SCD/SED line with missing/empty SDT specification at line 12 81: [20:40:14] SMARTS Parse Error: syntax error while parsing: [#6;R 81: [20:40:14] SMARTS Parse Error: check for mistakes around position 5: 81: [20:40:14] [#6;R 81: [20:40:14] ~~~~^ 81: [20:40:14] SMARTS Parse Error: Failed parsing SMARTS '[#6;R' for input: '[#6;R' 81: [20:40:14] SMARTS for SMARTSQ '[#6;R' could not be parsed or has no atoms. Ignoring it. 81: [20:40:14] Skipping empty SMARTS value for SMARTSQ. 81: [20:40:14] unrecognized QUERYOP '>' for SMARTSQ. Query ignored. 81: [20:40:14] Found a SCD/SED line with missing/empty SDT specification at line 12 81: [20:40:14] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 81: [20:40:14] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 81: [20:40:14] WARNING: Skipping property bar because the value includes an illegal blank line 81: [20:40:14] WARNING: Skipping property baz because the value includes an illegal blank line 81: [20:40:14] WARNING: Skipping property bletch 81: nope because the name includes a newline 81: [20:40:14] WARNING: Skipping property bletch 81: nope2 because the name includes a newline 81: [20:40:14] 81: 81: **** 81: Post-condition Violation 81: Element 'QQQ' not found 81: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 81: Failed Expression: anum > -1 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 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 81: 3# 0x0000FFFFB32B0510 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 4# 0x0000FFFFB32C526C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 5# 0x0000FFFFB32C71E4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE3F91D8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Post-condition Violation 81: Element 'QQQ' not found 81: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 81: Failed Expression: anum > -1 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 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 81: 3# 0x0000FFFFB32B0510 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 4# 0x0000FFFFB32C526C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 5# 0x0000FFFFB32C71E4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE3F8B30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Post-condition Violation 81: Element 'QQQ' not found 81: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 81: Failed Expression: anum > -1 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 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 81: 3# 0x0000FFFFB32B0510 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 4# 0x0000FFFFB32C2360 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 5# 0x0000FFFFB32C3214 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE3F9190 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] 81: 81: **** 81: Post-condition Violation 81: Element 'QQQ' not found 81: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 81: Failed Expression: anum > -1 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 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 81: 3# 0x0000FFFFB32B0510 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 4# 0x0000FFFFB32C2360 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 5# 0x0000FFFFB32C3214 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 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 81: 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 81: 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 81: 9# 0x0000AAAAAE3F8EAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 12# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 13# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 14# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 15# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 16# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 17# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 18# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] atom 3 has a negative isotope value. line: 15 81: [20:40:14] Ignoring invalid chirality label: '2_bad_chirality' 81: [20:40:14] 81: 81: **** 81: Pre-condition Violation 81: no input stream 81: Violation occurred on line 560 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 81: Failed Expression: dp_sInStream 81: ---------- 81: Stacktrace: 81: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 81: 2# RDKit::v2::FileParsers::MaeMolSupplier::init() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 3# RDKit::v2::FileParsers::MaeMolSupplier::reset() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFileParsers.so.1 81: 4# 0x0000AAAAAE438834 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 5# 0x0000AAAAAE4A130C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 6# 0x0000AAAAAE4A1CC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 7# 0x0000AAAAAE4A20F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 8# 0x0000AAAAAE4746F8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 9# 0x0000AAAAAE474C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 10# 0x0000AAAAAE3ED0AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: 11# 0x0000FFFFB285229C in /lib/aarch64-linux-gnu/libc.so.6 81: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 81: 13# 0x0000AAAAAE3ED170 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 81: ---------- 81: **** 81: 81: [20:40:14] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 81: [20:40:14] 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.[20:40:14] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 81: [20:40:14] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 81: [20:40:14] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 81: [20:40:14] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 5: Randomness seeded to: 649319340 5: =============================================================================== 5: All tests passed (120009 assertions in 2 test cases) 5: 78/243 Test #5: testConcurrentQueue .................... Passed 9.31 sec test 82 Start 82: macromolsCatchTest 82: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/macromolsCatchTest 82: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 82: Test timeout computed to be: 1500 51: Randomness seeded to: 467351796 51: =============================================================================== 51: All tests passed (14835 assertions in 14 test cases) 51: 79/243 Test #51: canonTestsCatch ........................ Passed 7.19 sec test 83 Start 83: testPropertyLists 83: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/testPropertyLists 83: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 83: Test timeout computed to be: 1500 83: Randomness seeded to: 3420063473 83: =============================================================================== 83: All tests passed (95 assertions in 4 test cases) 83: 80/243 Test #83: testPropertyLists ...................... Passed 0.02 sec test 84 Start 84: XYZFileParserCatchTest 84: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/XYZFileParserCatchTest 84: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 84: Test timeout computed to be: 1500 84: Randomness seeded to: 217351958 84: =============================================================================== 84: All tests passed (100 assertions in 2 test cases) 84: 81/243 Test #84: XYZFileParserCatchTest ................. Passed 0.02 sec test 85 Start 85: cdxmlParserCatchTest 85: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/cdxmlParserCatchTest 85: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 85: Test timeout computed to be: 1500 85: Randomness seeded to: 1327383899 85: [20:40:16] Invalid or missing fragment id from CDXML fragment, assigning new one... 85: [20:40:16] Explicit valence for atom # 3 N, 4, is greater than permitted 85: [20:40:16] CDXMLParser: failed sanitizing skipping fragment 32 85: [20:40:16] Bad bond in CDXML skipping fragment 58... 85: [20:40:16] Invalid or missing fragment id from CDXML fragment, assigning new one... 85: [20:40:16] Bad bond in CDXML skipping fragment 58... 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] WARNING: not removing hydrogen atom without neighbors 85: [20:40:16] CDXMLParser: Schema 80180 step 80181 ReactionStepAgents reaction fragment 64603 not found in document. 85: [20:40:16] Incomplete atom labelling, cannot make bond 85: [20:40:16] Incomplete atom labelling, cannot make bond 85: [20:40:16] Incomplete atom labelling, cannot make bond 85: [20:40:16] Failed to parse XML fragment 5 node: n attribute: id: mydoghasfleas 85: [20:40:16] Failed to parse XML fragment 5 node: n attribute: id: mydoghasfleas 85: [20:40:16] Failed to parse XML fragment 5 node: b attribute: Order: slartibartfast 85: [20:40:16] Failed to parse XML fragment 5 node: b attribute: Order: 5 85: [20:40:16] Invalid or missing fragment id from CDXML fragment, assigning new one... 85: =============================================================================== 85: All tests passed (264 assertions in 7 test cases) 85: 82/243 Test #85: cdxmlParserCatchTest ................... Passed 0.10 sec test 86 Start 86: molfileStereoCatchTest 86: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/molfileStereoCatchTest 86: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 86: Test timeout computed to be: 1500 75: [20:40:16] Finished: testSmiCorrectness() 75: [20:40:16] ----------------------------------------- 75: 75: [20:40:16] 75: ----------------------------------------- 75: [20:40:16] Spurious data before the first property will be ignored 75: [20:40:16] Property will be truncated after the first blank line 75: [20:40:16] Property will be truncated after the first blank line 75: [20:40:16] Property will be truncated after the first blank line 86: Randomness seeded to: 3148220085 86: [20:40:16] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 86: [20:40:16] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 86: [20:40:16] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 86: [20:40:16] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 86: =============================================================================== 86: All tests passed (142 assertions in 6 test cases) 86: 83/243 Test #86: molfileStereoCatchTest ................. Passed 0.02 sec test 87 Start 87: connectTheDotsTest 87: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/connectTheDotsTest 87: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 87: Test timeout computed to be: 1500 87: Randomness seeded to: 2685979984 87: [20:40:16] WARNING: not removing hydrogen atom without neighbors 87: [20:40:16] WARNING: not removing hydrogen atom without neighbors 87: [20:40:16] WARNING: not removing hydrogen atom without neighbors 87: [20:40:16] WARNING: not removing hydrogen atom without neighbors 87: =============================================================================== 87: All tests passed (18 assertions in 2 test cases) 87: 84/243 Test #87: connectTheDotsTest ..................... Passed 0.02 sec test 88 Start 88: v2MolSuppliers 88: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/v2MolSuppliers 88: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 88: Test timeout computed to be: 1500 88: Randomness seeded to: 588684321 88: [20:40:16] Ignoring invalid chirality label: '12_R_1_3_4_5' 88: [20:40:16] Ignoring invalid chirality label: '12_ANR_1_3_4_15' 88: [20:40:16] Ignoring invalid chirality label: '2_S_1_3_4' 88: [20:40:16] Ignoring invalid chirality label: '2_ANS_1_3_4_5_2' 88: =============================================================================== 88: All tests passed (24 assertions in 6 test cases) 88: 85/243 Test #88: v2MolSuppliers ......................... Passed 0.02 sec test 89 Start 89: v2FileParsersCatchTest 89: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/v2FileParsersCatchTest 89: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 89: Test timeout computed to be: 1500 89: Randomness seeded to: 1888831500 89: =============================================================================== 89: All tests passed (6 assertions in 1 test case) 89: 86/243 Test #89: v2FileParsersCatchTest ................. Passed 0.02 sec test 90 Start 90: atropisomersCatch 90: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/atropisomersCatch 90: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 90: Test timeout computed to be: 1500 90: Randomness seeded to: 2649918261 90: [20:40:16] The 2 defining bonds for an atropisomer are co-planar - atoms are: 3 5 90: [20:40:16] The 2 defining bonds for an atropisomer are co-planar - atoms are: 3 5 90: =============================================================================== 90: All tests passed (88 assertions in 3 test cases) 90: 87/243 Test #90: atropisomersCatch ...................... Passed 0.02 sec test 91 Start 91: multithreadedSupplierCatchTest 91: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/multithreadedSupplierCatchTest 91: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers 91: Test timeout computed to be: 1500 75: [20:40:17] Finished: testSDCorrectness() 75: [20:40:17] ----------------------------------------- 75: 75: [20:40:17] 75: ----------------------------------------- 75: [20:40:17] Finished: testThrowSDF() 75: [20:40:17] ----------------------------------------- 75: 75: [20:40:17] 75: ----------------------------------------- 75: [20:40:17] Finished: testThrowSmiles() 75: [20:40:17] ----------------------------------------- 75: 88/243 Test #75: testMultithreadedMolSupplier ........... Passed 3.73 sec test 92 Start 92: testSubstructMatch 92: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 92: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct 92: Test timeout computed to be: 1500 92: ----------------- Test 1 92: Done 92: 92: ----------------- Test 2 92: Done 92: 92: ----------------- Test 3 92: Done 92: 92: ----------------- Test 4 92: Done 92: 92: ----------------- Test 5 92: Done 92: 92: ----------------- Test 5 QueryRoot 92: Done 92: 92: ----------------- Test 6 (Issue71 related) 92: Done 92: 92: ----------------- Testing serial numbers on recursive queries 92: Done 92: 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test multithreading 92: reading molecules 92: hits: 1111110111111111111111011111100011011011111101010111011110111101111111111111111111111011111011111110 92: processing 92: launch :0 92: launch :1 92: launch :2 92: launch :3 91: Randomness seeded to: 2144508939 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: done 92: hits2: 1111110111111111111111011111100011011011111101010111011110111101111111111111111111111011111011111110 92: processing2 92: launch2 :0 92: launch2 :1 92: launch2 :2 92: launch2 :3 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 91: [20:40:17] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 92: done 92: preprocessing 3 92: hits3: 1110100011001000010011100110100011011000010101000100110010101111011100101000001111110000010100100110 92: processing3 92: launch3 :0 92: launch3 :1 92: launch3 :2 92: launch3 :3 92: done 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test GitHub issue 15 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test GitHub issue 409 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test chiral matching 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test GitHub issue 688: partially specified chiral substructure queries don't work properly 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test dative-bond matching 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test cis/trans matching 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test cis/trans matching part 2 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Testing Github #1389: Substructure matching with chirality failure when query is built from SMARTS 92: [20:40:17] done 92: [20:40:17] ------------------------------------- 92: [20:40:17] Testing matching E/Z against Cis/Trans stereo bonds 92: [20:40:17] 92: 92: **** 92: Pre-condition Violation 92: matches must not be empty 92: Violation occurred on line 43 in file ./Code/GraphMol/Substruct/SubstructUtils.cpp 92: Failed Expression: !matches.empty() 92: ---------- 92: Stacktrace: 92: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 92: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 92: 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 92: 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 92: 4# 0x0000AAAAC78EBC00 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 92: 5# 0x0000AAAAC78D9C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 92: 6# 0x0000FFFF81CD229C in /lib/aarch64-linux-gnu/libc.so.6 92: 7# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 92: 8# 0x0000AAAAC78D9E30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 92: ---------- 92: **** 92: 92: [20:40:17] 92: 92: **** 92: Pre-condition Violation 92: matches must not be empty 92: Violation occurred on line 43 in file ./Code/GraphMol/Substruct/SubstructUtils.cpp 92: Failed Expression: !matches.empty() 92: ---------- 92: Stacktrace: 92: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 92: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 92: 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 92: 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 92: 4# 0x0000AAAAC78EC188 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 92: 5# 0x0000AAAAC78D9C2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 92: 6# 0x0000FFFF81CD229C in /lib/aarch64-linux-gnu/libc.so.6 92: 7# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 92: 8# 0x0000AAAAC78D9E30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 92: ---------- 92: **** 92: 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test substructure matching with a pathological case for symmetric SSSR 92: [20:40:17] ------------------------------------- 92: [20:40:17] Test isAtomTerminalRGroupOrQueryHydrogen 89/243 Test #92: testSubstructMatch ..................... Passed 0.17 sec test 93 Start 93: substructTestCatch 93: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/substructTestCatch 93: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Substruct 93: Test timeout computed to be: 1500 91: [20:40:17] Explicit valence for atom # 9 N, 5, is greater than permitted 91: [20:40:17] Explicit valence for atom # 3 Al, 6, is greater than permitted 91: [20:40:17] Explicit valence for atom # 4 Al, 6, is greater than permitted 91: [20:40:17] Explicit valence for atom # 10 Si, 6, is greater than permitted 93: Randomness seeded to: 3709821510 93: =============================================================================== 93: All tests passed (262 assertions in 13 test cases) 93: 90/243 Test #93: substructTestCatch ..................... Passed 0.16 sec test 94 Start 94: testGenericGroups 94: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups/testGenericGroups 94: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GenericGroups 94: Test timeout computed to be: 1500 91: [20:40:17] Explicit valence for atom # 2 O, 4, is greater than permitted 91: [20:40:17] Explicit valence for atom # 3 Al, 6, is greater than permitted 91: [20:40:17] Explicit valence for atom # 3 Be, 4, is greater than permitted 91: [20:40:17] Explicit valence for atom # 27 P, 6, is greater than permitted 91: [20:40:17] Explicit valence for atom # 9 N, 5, is greater than permitted 91: [20:40:17] Explicit valence for atom # 3 Al, 6, is greater than permitted 94: Randomness seeded to: 2936913171 94: =============================================================================== 94: All tests passed (11480 assertions in 38 test cases) 94: 91/243 Test #94: testGenericGroups ...................... Passed 0.24 sec test 95 Start 95: testReaction 95: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/testReaction 95: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions 95: Test timeout computed to be: 1500 91: [20:40:17] Explicit valence for atom # 4 Al, 6, is greater than permitted 91: [20:40:17] Explicit valence for atom # 10 Si, 6, is greater than permitted 95: smi: O=C1CNC(=O)CN1 95: 1: O=C1CNC(=O)CN1 95: 2: COOC 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: [Q:1][C:2][C:3](=[O:4])[O:5] 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 2: 95: [20:40:17] [Q:1][C:2][C:3](=[O:4])[O:5] 95: [20:40:17] ~^ 95: [20:40:17] 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]' 95: O=C1CNC(=O)CN1 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] mapped atoms in the reactants were not mapped in the products. 95: unmapped numbers are: 4 95: [20:40:17] atom 0 in product 0 has multiple charge specifications. 95: mass: 15.0001 95: Oc1ccccn1 95: Oc1ccc[nH]1 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: ([C:1](=O)O.[C:2] 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 1: 95: [20:40:17] ([C:1](=O)O.[C:2] 95: [20:40:17] ^ 95: [20:40:17] SMARTS Parse Error: Failed parsing SMARTS '([C:1](=O)O.[C:2]' for input: '([C:1](=O)O.[C:2]' 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: ([C:2] 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 1: 95: [20:40:17] ([C:2] 95: [20:40:17] ^ 95: [20:40:17] SMARTS Parse Error: Failed parsing SMARTS '([C:2]' for input: '([C:2]' 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: [C:1](=O)O).[C:2] 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 11: 95: [20:40:17] [C:1](=O)O).[C:2] 95: [20:40:17] ~~~~~~~~~~^ 95: [20:40:17] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=O)O).[C:2]' for input: '[C:1](=O)O).[C:2]' 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: [C:2]) 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 6: 95: [20:40:17] [C:2]) 95: [20:40:17] ~~~~~^ 95: [20:40:17] SMARTS Parse Error: Failed parsing SMARTS '[C:2])' for input: '[C:2])' 95: [20:40:17] SMILES Parse Error: syntax error while parsing: [Q:1][C:2][C:3](=[O:4])[O:5] 95: [20:40:17] SMILES Parse Error: check for mistakes around position 2: 95: [20:40:17] [Q:1][C:2][C:3](=[O:4])[O:5] 95: [20:40:17] ~^ 95: [20:40:17] 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]' 95: [20:40:17] reactant 2 has no mapped atoms. 95: [20:40:17] >> Atoms within one molecule have different RXN roles. 95: [20:40:17] >> Fragment 0 not included in the reaction, atoms do not have a correct RXN role. 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: ([C:1][C:2] 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 1: 95: [20:40:17] ([C:1][C:2] 95: [20:40:17] ^ 95: [20:40:17] SMARTS Parse Error: Failed parsing SMARTS '([C:1][C:2]' for input: '([C:1][C:2]' 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: ([C:2] 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 1: 95: [20:40:17] ([C:2] 95: [20:40:17] ^ 95: [20:40:17] SMARTS Parse Error: Failed parsing SMARTS '([C:2]' for input: '([C:2]' 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: [C:1][C:2]) 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 11: 95: [20:40:17] [C:1][C:2]) 95: [20:40:17] ~~~~~~~~~~^ 95: [20:40:17] SMARTS Parse Error: Failed parsing SMARTS '[C:1][C:2])' for input: '[C:1][C:2])' 95: [20:40:17] SMARTS Parse Error: syntax error while parsing: [C:1]).[C:2] 95: [20:40:17] SMARTS Parse Error: check for mistakes around position 6: 95: [20:40:17] [C:1]).[C:2] 95: [20:40:17] ~~~~~^ 95: [20:40:17] SMARTS Parse Error: Failed parsing SMARTS '[C:1]).[C:2]' for input: '[C:1]).[C:2]' 95: [20:40:17] reactant 0 has no mapped atoms. 95: [20:40:17] reactant 1 has no mapped atoms. 95: [20:40:17] reactant 3 has no mapped atoms. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 5 found multiple times. 95: [20:40:17] product atom-mapping number 6 found multiple times. 95: [20:40:17] product atom-mapping number 7 found multiple times. 95: [20:40:17] product atom-mapping number 8 found multiple times. 95: [20:40:17] product atom-mapping number 12 found multiple times. 95: [20:40:17] product atom-mapping number 9 found multiple times. 95: [20:40:17] product atom-mapping number 10 found multiple times. 95: [20:40:17] product atom-mapping number 11 found multiple times. 95: [20:40:17] reactant 0 has no mapped atoms. 95: [20:40:17] reactant 1 has no mapped atoms. 95: [20:40:17] reactant 3 has no mapped atoms. 95: [20:40:17] reactant atom-mapping number 19 found multiple times. 95: [20:40:17] reactant atom-mapping number 25 found multiple times. 95: [20:40:17] reactant atom-mapping number 20 found multiple times. 95: [20:40:17] reactant atom-mapping number 21 found multiple times. 95: [20:40:17] reactant atom-mapping number 22 found multiple times. 95: [20:40:17] reactant atom-mapping number 23 found multiple times. 95: [20:40:17] reactant atom-mapping number 24 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: F[C@@](Cl)(Br)ONO[C@](F)(Cl)Br 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: F[C@](Cl)(Br)ONO[C@](F)(Cl)Br 95: [20:40:17] product atom-mapping number 5 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 5 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: F[C@@](Cl)(Br)ONO[C@](F)(Cl)Br 95: [20:40:17] product atom-mapping number 5 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 5 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: F[C@](Cl)(Br)ONO[C@](F)(Cl)Br 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: F[C@@](Cl)(Br)O[C@](F)(Cl)Br 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: F[C@](Cl)(Br)O[C@](F)(Cl)Br 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 4 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] mapped atoms in the reactants were not mapped in the products. 95: unmapped numbers are: 4 95: [20:40:17] product atom-mapping number 3 found multiple times. 95: [20:40:17] product atom-mapping number 2 found multiple times. 95: [20:40:17] product atom-mapping number 1 found multiple times. 95: [20:40:17] mapped atoms in the reactants were not mapped in the products. 95: unmapped numbers are: 4 95: [20:40:17] product atom-mapping number 6 not found in reactants. 95: [20:40:17] product atom-mapping number 7 not found in reactants. 95: [20:40:17] product atom-mapping number 8 not found in reactants. 95: [20:40:17] product atom-mapping number 7 not found in reactants. 95: [20:40:17] product atom-mapping number 8 not found in reactants. 95: [20:40:17] product atom-mapping number 9 not found in reactants. 95: [20:40:17] product atom-mapping number 10 not found in reactants. 95: [20:40:17] mapped atoms in the reactants were not mapped in the products. 95: unmapped numbers are: 6 95: [20:40:17] product atom-mapping number 7 not found in reactants. 95: [20:40:17] product atom-mapping number 8 not found in reactants. 95: [20:40:17] product atom-mapping number 9 not found in reactants. 95: [20:40:17] product atom-mapping number 10 not found in reactants. 95: [20:40:17] mapped atoms in the reactants were not mapped in the products. 95: unmapped numbers are: 6 95: 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] 95: 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] 95: [20:40:17] mapped atoms in the reactants were not mapped in the products. 95: unmapped numbers are: 7 8 9 10 11 12 13 14 15 16 91: [20:40:17] Explicit valence for atom # 2 O, 4, is greater than permitted 91: [20:40:17] Explicit valence for atom # 3 Be, 4, is greater than permitted 91: [20:40:17] Explicit valence for atom # 3 Al, 6, is greater than permitted 95: [20:40:17] product atom-mapping number 17 not found in reactants. 95: [20:40:17] product atom-mapping number 18 not found in reactants. 95: [20:40:17] mapped atoms in the reactants were not mapped in the products. 95: unmapped numbers are: 12 91: [20:40:17] Explicit valence for atom # 27 P, 6, is greater than permitted 91: =============================================================================== 91: All tests passed (21562 assertions in 3 test cases) 91: 92/243 Test #91: multithreadedSupplierCatchTest ......... Passed 0.73 sec test 96 Start 96: testReactionFingerprints 96: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/testReactionFingerprints 96: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions 96: Test timeout computed to be: 1500 96: [20:40:17] ------------------------------------- 96: [20:40:17] Test Reaction StructuralFingerprint 95: [20:40:17] Reaction has explicit hydrogens, reactants will need explicit hydrogens (addHs) 95: [20:40:17] Reaction has explicit hydrogens, reactants will need explicit hydrogens (addHs) 95: 95: [20:40:17] Mismatched potential rlabels: 1 unmapped reactant dummy atom rlabels,0 unmappped product dummy atom rlabels 95: ------------- 95: CCOc1ccccc1 96: [20:40:17] ------------------------------------- 96: [20:40:17] Test Reaction DifferenceFingerprint 93/243 Test #96: testReactionFingerprints ............... Passed 0.02 sec test 97 Start 97: testEnumeration 97: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/testEnumeration 97: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions 97: Test timeout computed to be: 1500 95: [20:40:17] reactant 0 has no mapped atoms. 95: [20:40:17] product 0 has no mapped atoms. 95: [20:40:17] WARNING: neither stereo atoms nor CIP codes found for double bond. Stereochemistry info will not be propagated to product. 97: 30000000 30000000 94/243 Test #95: testReaction ........................... Passed 0.21 sec test 98 Start 98: rxnTestCatch 98: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/rxnTestCatch 98: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions 98: Test timeout computed to be: 1500 98: Randomness seeded to: 2154842441 98: [20:40:17] atom 0 in product 0 has multiple charge specifications. 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 34 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 36 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 38 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 40 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 42 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 87 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 89 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 91 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 93 98: [20:40:17] Found a SCD/SED line with missing/empty SDT specification at line 95 98: [20:40:17] mapped atoms in the reactants were not mapped in the products. 98: unmapped numbers are: 2 98: [20:40:17] mapped atoms in the reactants were not mapped in the products. 98: unmapped numbers are: 2 98: [20:40:17] SMARTS Parse Error: unclosed ring for input: 'CC1' 98: [20:40:17] SMILES Parse Error: unclosed ring for input: 'CC1' 98: [20:40:17] mapped atoms in the reactants were not mapped in the products. 98: unmapped numbers are: 2 98: [20:40:17] product atom-mapping number 2 not found in reactants. 98: [20:40:17] mapped atoms in the reactants were not mapped in the products. 98: unmapped numbers are: 2 98: [20:40:17] product atom-mapping number 2 not found in reactants. 98: [20:40:17] CX Extensions: Substance group hierarchy is not always preserved. 98: [20:40:17] CX Extensions: Substance group hierarchy is not always preserved. 98: [20:40:17] reactant 0 has no mapped atoms. 98: [20:40:17] product 0 has no mapped atoms. 98: [20:40:17] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 98: [20:40:17] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 98: [20:40:17] Explicit valence for atom # 1 O, 5, is greater than permitted 98: =============================================================================== 98: All tests passed (722 assertions in 30 test cases) 98: 95/243 Test #98: rxnTestCatch ........................... Passed 0.06 sec test 99 Start 99: pyChemReactions 99: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/testReactionWrapper.py" 99: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 99: Test timeout computed to be: 1500 81: =============================================================================== 81: All tests passed (1645 assertions in 100 test cases) 81: 96/243 Test #81: fileParsersCatchTest ................... Passed 3.89 sec test 100 Start 100: pyChemReactionEnumerations 100: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/testEnumerations.py" 100: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 100: Test timeout computed to be: 1500 82: Randomness seeded to: 130475761 82: [20:40:18] 3D constraint information in mol block ignored at line 46 82: [20:40:18] 3D constraint information in mol block ignored at line 46 82: [20:40:18] 3D constraint information in mol block ignored at line 58 82: [20:40:18] 3D constraint information in mol block ignored at line 58 82: [20:40:18] 3D constraint information in mol block ignored at line 46 82: =============================================================================== 82: All tests passed (315 assertions in 3 test cases) 82: 97/243 Test #82: macromolsCatchTest ..................... Passed 3.59 sec test 101 Start 101: pyChemReactionSanitize 101: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/Wrap/testSanitize.py" 101: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 101: Test timeout computed to be: 1500 99: ...[20:40:18] 99: 99: **** 99: Pre-condition Violation 99: getNumImplicitHs() called without preceding call to calcImplicitValence() 99: Violation occurred on line 301 in file ./Code/GraphMol/Atom.cpp 99: Failed Expression: d_implicitValence > -1 99: ---------- 99: Stacktrace: 99: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 99: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 99: 2# RDKit::Atom::getNumImplicitHs() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 3# RDKit::Atom::getTotalNumHs(bool) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 4# Queries::EqualityQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSmilesParse.so.1 99: 5# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 6# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 7# Queries::OrQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 24# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 25# 0x0000FFFFB15B2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 26# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 36# 0x0000FFFFAFAD4220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 37# 0x0000FFFFAFAD41BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 38# 0x0000FFFFAFAD4158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 39# 0x0000FFFFAFAD40E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 40# 0x0000FFFFAFAD4084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 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 99: 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 99: 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 99: 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 99: 45# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 46# 0x0000FFFFB15AF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 47# _PyObject_MakeTpCall in /usr/bin/python3 99: 48# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 49# 0x000000000053D490 in /usr/bin/python3 99: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 51# 0x0000000000626920 in /usr/bin/python3 99: 52# 0x00000000005AA5E4 in /usr/bin/python3 99: 53# _PyObject_MakeTpCall in /usr/bin/python3 99: 54# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 55# 0x000000000053D490 in /usr/bin/python3 99: 56# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 57# 0x0000000000626920 in /usr/bin/python3 99: 58# 0x00000000005AA5E4 in /usr/bin/python3 99: 59# _PyObject_MakeTpCall in /usr/bin/python3 99: 60# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 61# 0x000000000053D490 in /usr/bin/python3 99: 62# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 63# 0x0000000000626920 in /usr/bin/python3 99: 64# 0x00000000005AA5E4 in /usr/bin/python3 99: 65# _PyObject_MakeTpCall in /usr/bin/python3 99: 66# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 67# 0x000000000050B254 in /usr/bin/python3 99: 68# _PyObject_MakeTpCall in /usr/bin/python3 99: 69# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 70# PyEval_EvalCode in /usr/bin/python3 99: 71# 0x000000000064AE1C in /usr/bin/python3 99: 72# 0x0000000000646A70 in /usr/bin/python3 99: 73# 0x000000000066A1B0 in /usr/bin/python3 99: 74# 0x0000000000669A54 in /usr/bin/python3 99: 75# 0x00000000006697EC in /usr/bin/python3 99: 76# Py_RunMain in /usr/bin/python3 99: 77# Py_BytesMain in /usr/bin/python3 99: 78# 0x0000FFFFB214229C in /lib/aarch64-linux-gnu/libc.so.6 99: 79# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 99: 80# _start in /usr/bin/python3 99: ---------- 99: **** 99: 99: [20:40:18] 99: 99: **** 99: Pre-condition Violation 99: getNumImplicitHs() called without preceding call to calcImplicitValence() 99: Violation occurred on line 301 in file ./Code/GraphMol/Atom.cpp 99: Failed Expression: d_implicitValence > -1 99: ---------- 99: Stacktrace: 99: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 99: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 99: 2# RDKit::Atom::getNumImplicitHs() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 3# RDKit::Atom::getTotalNumHs(bool) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 4# Queries::EqualityQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSmilesParse.so.1 99: 5# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 6# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 7# Queries::OrQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 24# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 25# 0x0000FFFFB15B2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 26# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 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 99: 36# 0x0000FFFFAFAD4220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 37# 0x0000FFFFAFAD41BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 38# 0x0000FFFFAFAD4158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 39# 0x0000FFFFAFAD40E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 40# 0x0000FFFFAFAD4084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 99: 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 99: 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 99: 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 99: 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 99: 45# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 46# 0x0000FFFFB15AF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 99: 47# _PyObject_MakeTpCall in /usr/bin/python3 99: 48# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 49# 0x000000000053D490 in /usr/bin/python3 99: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 51# 0x0000000000626920 in /usr/bin/python3 99: 52# 0x00000000005AA5E4 in /usr/bin/python3 99: 53# _PyObject_MakeTpCall in /usr/bin/python3 99: 54# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 55# 0x000000000053D490 in /usr/bin/python3 99: 56# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 57# 0x0000000000626920 in /usr/bin/python3 99: 58# 0x00000000005AA5E4 in /usr/bin/python3 99: 59# _PyObject_MakeTpCall in /usr/bin/python3 99: 60# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 61# 0x000000000053D490 in /usr/bin/python3 99: 62# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 63# 0x0000000000626920 in /usr/bin/python3 99: 64# 0x00000000005AA5E4 in /usr/bin/python3 99: 65# _PyObject_MakeTpCall in /usr/bin/python3 99: 66# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 67# 0x000000000050B254 in /usr/bin/python3 99: 68# _PyObject_MakeTpCall in /usr/bin/python3 99: 69# _PyEval_EvalFrameDefault in /usr/bin/python3 99: 70# PyEval_EvalCode in /usr/bin/python3 99: 71# 0x000000000064AE1C in /usr/bin/python3 99: 72# 0x0000000000646A70 in /usr/bin/python3 99: 73# 0x000000000066A1B0 in /usr/bin/python3 99: 74# 0x0000000000669A54 in /usr/bin/python3 99: 75# 0x00000000006697EC in /usr/bin/python3 99: 76# Py_RunMain in /usr/bin/python3 99: 77# Py_BytesMain in /usr/bin/python3 99: 78# 0x0000FFFFB214229C in /lib/aarch64-linux-gnu/libc.so.6 99: 79# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 99: 80# _start in /usr/bin/python3 99: ---------- 99: **** 99: 99: .........[20:40:18] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 99: [20:40:18] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 99: [20:40:18] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 99: [20:40:18] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 99: .[20:40:18] product atom-mapping number 1 found multiple times. 99: [20:40:18] product atom-mapping number 1 found multiple times. 99: ................[20:40:18] mapped atoms in the reactants were not mapped in the products. 99: unmapped numbers are: 3 99: [20:40:18] mapped atoms in the reactants were not mapped in the products. 99: unmapped numbers are: 3 99: .:488: RuntimeWarning: to-Python converter for boost::shared_ptr already registered; second conversion method ignored. 99: [20:40:18] mapped atoms in the reactants were not mapped in the products. 99: unmapped numbers are: 3 99: ..[20:40:18] reactant 2 has no mapped atoms. 99: [20:40:18] reactant 2 has no mapped atoms. 99: [20:40:18] product 1 has no mapped atoms. 99: ........[20:40:18] SMARTS Parse Error: syntax error while parsing: [C:1](=[O:2])Q 99: [20:40:18] SMARTS Parse Error: check for mistakes around position 14: 99: [20:40:18] [C:1](=[O:2])Q 99: [20:40:18] ~~~~~~~~~~~~~^ 99: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=[O:2])Q' for input: '[C:1](=[O:2])Q' 99: [20:40:18] SMARTS Parse Error: syntax error while parsing: [C:1](=[O:2])[N:3]Q 99: [20:40:18] SMARTS Parse Error: check for mistakes around position 19: 99: [20:40:18] [C:1](=[O:2])[N:3]Q 99: [20:40:18] ~~~~~~~~~~~~~~~~~~^ 99: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=[O:2])[N:3]Q' for input: '[C:1](=[O:2])[N:3]Q' 99: .[20:40:18] reactant atom-mapping number 1 found multiple times. 99: [20:40:18] product atom-mapping number 2 not found in reactants. 99: [20:40:18] mapped atoms in the reactants were not mapped in the products. 99: unmapped numbers are: 4 99: [20:40:18] product atom-mapping number 5 not found in reactants. 99: ........./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'> 99: png = open(fname, 'rb').read() 99: ResourceWarning: Enable tracemalloc to get the object allocation traceback 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 34 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 36 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 38 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 40 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 42 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 87 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 89 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 91 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 93 99: [20:40:18] Found a SCD/SED line with missing/empty SDT specification at line 95 99: ..[20:40:18] SMARTS Parse Error: syntax error while parsing: boromicacid 99: [20:40:18] SMARTS Parse Error: check for mistakes around position 3: 99: [20:40:18] boromicacid 99: [20:40:18] ~~^ 99: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS 'boromicacid' for input: 'boromicacid' 99: [20:40:18] SMARTS Parse Error: syntax error while parsing: carboxylicacid,acidchlroide 99: [20:40:18] SMARTS Parse Error: check for mistakes around position 3: 99: [20:40:18] carboxylicacid,acidchlroide 99: [20:40:18] ~~^ 99: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS 'carboxylicacid,acidchlroide' for input: 'carboxylicacid,acidchlroide' 99: [20:40:18] SMARTS Parse Error: syntax error while parsing: carboxyliccaid,acidchloride 99: [20:40:18] SMARTS Parse Error: check for mistakes around position 3: 99: [20:40:18] carboxyliccaid,acidchloride 99: [20:40:18] ~~^ 99: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS 'carboxyliccaid,acidchloride' for input: 'carboxyliccaid,acidchloride' 99: [20:40:18] reaction has no reactants 99: [20:40:18] reaction has no products 99: [20:40:18] initialization failed 99: [20:40:18] reaction has no reactants 99: [20:40:18] reaction has no products 99: .[20:40:18] SMARTS Parse Error: syntax error while parsing: boromicacid 99: [20:40:18] SMARTS Parse Error: check for mistakes around position 3: 99: [20:40:18] boromicacid 99: [20:40:18] ~~^ 99: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS 'boromicacid' for input: 'boromicacid' 99: [20:40:18] SMARTS Parse Error: syntax error while parsing: carboxylicacid,acidchlroide 99: [20:40:18] SMARTS Parse Error: check for mistakes around position 3: 99: [20:40:18] carboxylicacid,acidchlroide 99: [20:40:18] ~~^ 99: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS 'carboxylicacid,acidchlroide' for input: 'carboxylicacid,acidchlroide' 99: [20:40:18] SMARTS Parse Error: syntax error while parsing: carboxyliccaid,acidchloride 99: [20:40:18] SMARTS Parse Error: check for mistakes around position 3: 99: [20:40:18] carboxyliccaid,acidchloride 99: [20:40:18] ~~^ 99: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS 'carboxyliccaid,acidchloride' for input: 'carboxyliccaid,acidchloride' 99: [20:40:18] reaction has no reactants 99: [20:40:18] reaction has no products 99: [20:40:18] initialization failed 99: [20:40:18] reaction has no reactants 99: [20:40:18] reaction has no products 99: . 99: ---------------------------------------------------------------------- 99: Ran 54 tests in 0.088s 99: 99: OK 99: ******************************************** 99: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/ChemReactions/testData/AmideBond.rxn 99: 98/243 Test #99: pyChemReactions ........................ Passed 0.40 sec test 102 Start 102: testChemTransforms 102: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/testChemTransforms 102: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms 102: Test timeout computed to be: 1500 100: [20:40:18] == testCartesianProduct 100: .[20:40:18] == testEnumerateLibrary 100: /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'> 100: open(os.path.join(self.dataDir, "enumeration.pickle"), 'rb').read()) 100: ResourceWarning: Enable tracemalloc to get the object allocation traceback 101: .[20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: .[20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 102: 1 smi: CC 102: 1 smi: CC 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 102: 2 smi: CCO[C@H](N)P 102: 2 smi: CC 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: () 101: ******************************************** 101: $RXN 101: 101: RDKit 101: 101: 2 1 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 1 0 0 0 0 0 0999 V2000 101: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 101: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 1 2 1 0 101: M RGP 1 2 1 101: V 1 halogen.bromine.aromatic 101: V 2 [*:1] 101: M STY 1 1 DAT 101: M SAL 1 1 1 101: M SED 1 [#35&$([Br&$(Br-&!@c)])] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 4 3 0 1 0 0 0 0 0 0999 V2000 101: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 101: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 2 3 1 0 101: 1 2 1 0 101: 2 4 1 0 101: M RGP 1 1 2 101: V 1 [*:2] 101: V 2 boronicacid 101: M STY 1 1 DAT 101: M SAL 1 1 2 101: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 0 0 0 0 0 0 0999 V2000 101: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 101: 1 2 1 0 101: M RGP 2 1 1 2 2 101: V 1 [*:1] 101: V 2 [*:2] 101: M END 101: 101: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 101: $RXN 101: 101: RDKit 101: 101: 2 1 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 1 0 0 0 0 0 0999 V2000 101: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 101: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 1 2 1 0 101: M RGP 1 2 1 101: V 1 halogen.bromine.aromatic 101: V 2 [*:1] 101: M STY 1 1 DAT 101: M SAL 1 1 1 101: M SED 1 [#35&$([Br&$(Br-&!@c)])] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 4 3 0 1 0 0 0 0 0 0999 V2000 101: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 101: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 2 3 1 0 101: 1 2 1 0 101: 2 4 1 0 101: M RGP 1 1 2 101: V 1 [*:2] 101: V 2 boronicacid 101: M STY 1 1 DAT 101: M SAL 1 1 2 101: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 0 0 0 0 0 0 0999 V2000 101: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 101: 1 2 1 0 101: M RGP 2 1 1 2 2 101: V 1 [*:1] 101: V 2 [*:2] 101: M END 101: 101: ******************************************** 101: $RXN 101: 101: RDKit 101: 101: 2 1 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 1 0 0 0 0 0 0999 V2000 101: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 101: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 101: 1 2 1 0 101: M RGP 1 2 1 101: V 1 halogen.bromine.aromatic 101: V 2 * 101: M STY 1 1 DAT 101: M SAL 1 1 1 101: M SED 1 [#35&$([Br&$(Br-&!@c)])] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 4 3 0 1 0 0 0 0 0 0999 V2000 101: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 2 3 1 0 101: 1 2 1 0 101: 2 4 1 0 101: M RGP 1 1 2 101: V 1 * 101: V 2 boronicacid 101: M STY 1 1 DAT 101: M SAL 1 1 2 101: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 0 0 0 0 0 0 0999 V2000 101: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 101: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 101: 1 2 1 0 101: M RGP 2 1 1 2 2 101: V 1 * 101: V 2 * 101: M END 101: 101: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 101: $RXN 101: 101: RDKit 101: 101: 2 1 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 1 0 0 0 0 0 0999 V2000 101: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 101: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 1 2 1 0 101: M RGP 1 2 1 101: V 1 halogen.bromine.aromatic 101: V 2 [*:1] 101: M STY 1 1 DAT 101: M SAL 1 1 1 101: M SED 1 [#35&$([Br&$(Br-&!@c)])] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 4 3 0 1 0 0 0 0 0 0999 V2000 101: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 101: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 2 3 1 0 101: 1 2 1 0 101: 2 4 1 0 101: M RGP 1 1 2 101: V 1 [*:2] 101: V 2 boronicacid 101: M STY 1 1 DAT 101: M SAL 1 1 2 101: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 0 0 0 0 0 0 0999 V2000 101: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 101: 1 2 1 0 101: M RGP 2 1 1 2 2 101: V 1 [*:1] 101: V 2 [*:2] 101: M END 101: 101: ******************************************** 101: $RXN 101: 101: RDKit 101: 101: 2 1 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 1 0 0 0 0 0 0999 V2000 101: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 101: -3.9875 -7.4667 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 101: 1 2 1 0 101: M ISO 1 2 1 101: V 1 halogen.bromine.aromatic 101: M STY 1 1 DAT 101: M SAL 1 1 1 101: M SED 1 [#35&$([Br&$(Br-&!@c)])] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 4 3 0 1 0 0 0 0 0 0999 V2000 101: 3.4375 -7.7917 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 2 3 1 0 101: 1 2 1 0 101: 2 4 1 0 101: M ISO 1 1 2 101: V 2 boronicacid 101: M STY 1 1 DAT 101: M SAL 1 1 2 101: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 0 0 0 0 0 0 0999 V2000 101: 11.2667 -7.3417 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 101: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 101: 1 2 1 0 101: M ISO 2 1 1 2 2 101: M END 101: 101: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 101: $RXN 101: 101: RDKit 101: 101: 2 1 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 1 0 0 0 0 0 0999 V2000 101: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 101: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 1 2 1 0 101: M RGP 1 2 1 101: V 1 halogen.bromine.aromatic 101: V 2 [*:1] 101: M STY 1 1 DAT 101: M SAL 1 1 1 101: M SED 1 [#35&$([Br&$(Br-&!@c)])] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 4 3 0 1 0 0 0 0 0 0999 V2000 101: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 101: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 2 3 1 0 101: 1 2 1 0 101: 2 4 1 0 101: M RGP 1 1 2 101: V 1 [*:2] 101: V 2 boronicacid 101: M STY 1 1 DAT 101: M SAL 1 1 2 101: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 0 0 0 0 0 0 0999 V2000 101: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 101: 1 2 1 0 101: M RGP 2 1 1 2 2 101: V 1 [*:1] 101: V 2 [*:2] 101: M END 101: 101: ******************************************** 101: $RXN 101: 101: RDKit 101: 101: 2 1 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 1 0 0 0 0 0 0999 V2000 101: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 101: -3.9875 -7.4667 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 101: 1 2 1 0 101: M ISO 1 2 1 101: V 1 halogen.bromine.aromatic 101: M STY 1 1 DAT 101: M SAL 1 1 1 101: M SED 1 [#35&$([Br&$(Br-&!@c)])] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 4 3 0 1 0 0 0 0 0 0999 V2000 101: 3.4375 -7.7917 0.0000 R3 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 2 3 1 0 101: 1 2 1 0 101: 2 4 1 0 101: M ISO 1 1 3 101: V 2 boronicacid 101: M STY 1 1 DAT 101: M SAL 1 1 2 101: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 0 0 0 0 0 0 0999 V2000 101: 11.2667 -7.3417 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 101: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 101: 1 2 1 0 101: M ISO 2 1 1 2 2 101: M END 101: [20:40:18] reactant 0 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] product 0 has no mapped atoms. 101: [20:40:18] Could not find RLabel mapping for atom: 0 in template: 1 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 101: [20:40:18] reactant 1 has no mapped atoms. 102: replaceSub smi1:CCP(CC)[C@@H](N)O 101: .. 101: ---------------------------------------------------------------------- 101: Ran 4 tests in 0.011s 101: 102: replaceSub smi1:CCNCC 101: OK 101: 101: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 101: $RXN 101: 101: RDKit 101: 101: 2 1 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 1 0 0 0 0 0 0999 V2000 101: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 101: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 1 2 1 0 101: M RGP 1 2 1 101: V 1 halogen.bromine.aromatic 101: V 2 [*:1] 101: M STY 1 1 DAT 101: M SAL 1 1 1 101: M SED 1 [#35&$([Br&$(Br-&!@c)])] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 4 3 0 1 0 0 0 0 0 0999 V2000 101: 3.4375 -7.7917 0.0000 R3 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 101: 2 3 1 0 101: 1 2 1 0 101: 2 4 1 0 101: M ISO 1 1 3 101: V 2 boronicacid 101: M STY 1 1 DAT 101: M SAL 1 1 2 101: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 101: M END 101: $MOL 101: 101: RDKit 2D 101: 101: 2 1 0 0 0 0 0 0 0 0999 V2000 101: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 101: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 101: 1 2 1 0 101: M ISO 1 2 2 101: M RGP 1 1 1 101: V 1 [*:1] 101: M END 101: 101: $RXN Failed 102: sidechains chiral=true smi1;;; [1*]P([2*])[C@H](N)O 102: sidechains chiral=false smi1;;; [1*]P([2*])[C@H](N)O 100: ..[20:40:18] == testRGroupState 100: .[20:40:18] == testRandomEnumerateAllBBsLibrary 100: ** [1, 1] 100: ** [0, 2] 100: ** [1, 0] 100: .[20:40:18] == testRandomEnumerateLibrary 102: [20:40:18] SMARTS Parse Error: syntax error while parsing: bar 102: [20:40:18] SMARTS Parse Error: check for mistakes around position 3: 102: [20:40:18] bar 102: [20:40:18] ~~^ 102: [20:40:18] SMARTS Parse Error: Failed parsing SMARTS 'bar' for input: 'bar' 100: .[20:40:18] == testRandomSample 100: .[20:40:18] == testRandomSampleAllBBs 100: .[20:40:18] deprecated -- please use MatchOnlyAtRgroupsAdjustParams instead 100: [20:40:18] deprecated -- please use MatchOnlyAtRgroupsAdjustParams instead 100: .[20:40:18] == testRemoveBadMatches 100: .[20:40:18] == testTimings 99/243 Test #101: pyChemReactionSanitize ................. Passed 0.24 sec test 103 Start 103: chemTransformsTestCatch 103: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms 103: Test timeout computed to be: 1500 100/243 Test #102: testChemTransforms ..................... Passed 0.09 sec test 104 Start 104: tautomerQueryTestCatch 104: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/tautomerQueryTestCatch 104: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery 104: Test timeout computed to be: 1500 103: Randomness seeded to: 752802437 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] Incomplete atom labelling, cannot make bond 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: bond info already exists for end atom with label:1 103: Violation occurred on line 1097 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: !bond.b 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# 0x0000AAAAAB704DAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 5# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 12# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 13# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: [20:40:18] 103: 103: **** 103: Invariant Violation 103: molzip: zipped Bond already exists, perhaps labels are duplicated 103: Violation occurred on line 749 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 103: Failed Expression: params.label == MolzipLabel::FragmentOnBonds || !a->getOwningMol().getBondBetweenAtoms(a->getIdx(), b->getIdx()) 103: ---------- 103: Stacktrace: 103: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 103: 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.1 103: 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.1 103: 4# RDKit::molzip(RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 103: 5# 0x0000AAAAAB6FEACC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 6# 0x0000AAAAAB759CAC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 7# 0x0000AAAAAB75A660 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 8# 0x0000AAAAAB75AA94 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 9# 0x0000AAAAAB72C078 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 10# 0x0000AAAAAB72C5AC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 11# 0x0000AAAAAB6FD3EC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: 12# 0x0000FFFF7FD1229C in /lib/aarch64-linux-gnu/libc.so.6 103: 13# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 103: 14# 0x0000AAAAAB6FD4B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 103: ---------- 103: **** 103: 103: =============================================================================== 103: All tests passed (502 assertions in 11 test cases) 103: 101/243 Test #103: chemTransformsTestCatch ................ Passed 0.04 sec test 105 Start 105: pyTautomerQuery 105: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/TautomerQuery/Wrap/rough_test.py" 105: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap 105: Test timeout computed to be: 1500 104: Randomness seeded to: 4119046015 104: =============================================================================== 104: All tests passed (112 assertions in 14 test cases) 104: 102/243 Test #104: tautomerQueryTestCatch ................. Passed 0.12 sec test 106 Start 106: testSubgraphs1 106: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/testSubgraphs1 106: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs 106: Test timeout computed to be: 1500 106: ----------------------- 106: Subgraph retrieval 106: Finished 106: ----------------------- 106: testSubgraphs2a 106: Finished 106: ----------------------- 106: testSubgraphs2 106: Finished 106: ----------------------- 106: Path retrieval 106: Finished 106: ----------------------- 106: Path retrieval2 106: Finished 106: ----------------------- 106: Unique Subgraph retrieval 106: Finished 106: ----------------------- 106: testUniqueSubgraphs2 105: ..... 105: ---------------------------------------------------------------------- 105: Ran 5 tests in 0.021s 105: 105: OK 103/243 Test #105: pyTautomerQuery ........................ Passed 0.24 sec test 107 Start 107: testSubgraphs2 107: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/testSubgraphs2 107: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs 107: Test timeout computed to be: 1500 107: ----------------------- 107: Test1: pathToSubmol 107: Finished 107: ----------------------- 107: Test2: Atom Environments 107: Finished 107: ----------------------- 107: Test 3: Atom Environments (Extension) 107: Finished 107: ----------------------- 107: Testing github Issue103: stereochemistry and pathToSubmol 107: Finished 107: ----------------------- 107: Testing github Issue103: more stereochemistry and pathToSubmol (path needs to be in sorted order) 107: Finished 104/243 Test #107: testSubgraphs2 ......................... Passed 0.01 sec test 108 Start 108: subgraphsCatch 108: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/subgraphsCatch 108: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs 108: Test timeout computed to be: 1500 108: Randomness seeded to: 2267779458 108: --------- 108: =============================================================================== 108: All tests passed (11 assertions in 1 test case) 108: 105/243 Test #108: subgraphsCatch ......................... Passed 0.03 sec test 109 Start 109: filterCatalogTest 109: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/filterCatalogTest 109: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog 109: Test timeout computed to be: 1500 106: Finished 106: ----------------------- 106: testRootedSubgraphs 106: Finished 106: ----------------------- 106: testRootedPaths 106: Finished 106/243 Test #106: testSubgraphs1 ......................... Passed 0.20 sec test 110 Start 110: pyFilterCatalog 110: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FilterCatalog/Wrap/rough_test.py" 110: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap 110: Test timeout computed to be: 1500 109: Warning: molecule failed filter 109: Warning: molecule failed filter: reason hzone_phenol_A(479) 109: v = { 109: 0,23}, 109: 1,22}, 109: 2,20}, 109: 3,19}, 109: 4,25}, 109: 5,24}, 109: 6,18}, 109: 7,17}, 109: 8,16}, 109: 9,21}, 109: } 109: match = { 109: 0,23}, 109: 1,22}, 109: 2,20}, 109: 3,19}, 109: 4,25}, 109: 5,24}, 109: 6,18}, 109: 7,17}, 109: 8,16}, 109: 9,21}, 109: } 109: Warning: molecule failed filter 109: Warning: molecule failed filter: reason cyano_imine_B(17) 109: v = { 109: 0,11}, 109: 1,12}, 109: 2,13}, 109: 3,14}, 109: 4,15}, 109: 5,10}, 109: 6,9}, 109: 7,8}, 109: 8,7}, 109: 9,6}, 109: 10,5}, 109: 11,17}, 109: 12,16}, 109: } 109: match = { 109: 0,11}, 109: 1,12}, 109: 2,13}, 109: 3,14}, 109: 4,15}, 109: 5,10}, 109: 6,9}, 109: 7,8}, 109: 8,7}, 109: 9,6}, 109: 10,5}, 109: 11,17}, 109: 12,16}, 109: } 109: Warning: molecule failed filter 109: Warning: molecule failed filter: reason keto_keto_gamma(5) 109: v = { 109: 0,0}, 109: 1,1}, 109: 2,2}, 109: 3,4}, 109: 4,5}, 109: 5,6}, 109: 6,7}, 109: 7,8}, 109: 8,9}, 109: 9,14}, 109: 10,15}, 109: 11,16}, 109: } 109: match = { 109: 0,0}, 109: 1,1}, 109: 2,2}, 109: 3,4}, 109: 4,5}, 109: 5,6}, 109: 6,7}, 109: 7,8}, 109: 8,9}, 109: 9,14}, 109: 10,15}, 109: 11,16}, 109: } 100: . 100: ---------------------------------------------------------------------- 100: Ran 11 tests in 0.499s 100: 100: OK 100: True 100: == CartesianProductStrategy CartesianProductStrategy 100: 197 out of 300 100: 0 6 out of 10 100: 1 3 out of 5 100: 2 4 out of 6 100: 198 out of 300 100: 0 10 out of 10 100: 1 5 out of 5 100: 2 6 out of 6 100: Skipped 10000000 in 0.030326366424560547 seconds 100: Skipped 10000000 in 0.25731444358825684 seconds 100: Skipped 10000000 in 0.07622146606445312 seconds 107/243 Test #100: pyChemReactionEnumerations ............. Passed 0.73 sec test 111 Start 111: testFragCatalog 111: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog 111: Test timeout computed to be: 1500 110: :488: RuntimeWarning: to-Python converter for boost::shared_ptr already registered; second conversion method ignored. 111: 21 108/243 Test #109: filterCatalogTest ...................... Passed 0.20 sec test 112 Start 112: pyFragCatalog 112: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FragCatalog/Wrap/rough_test.py" 112: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap 112: Test timeout computed to be: 1500 112: ......... 112: ---------------------------------------------------------------------- 112: Ran 9 tests in 0.028s 112: 112: OK 109/243 Test #112: pyFragCatalog .......................... Passed 0.23 sec test 113 Start 113: testDescriptors 113: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testDescriptors 113: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 113: Test timeout computed to be: 1500 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test Crippen parameter acquisition. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test Crippen calculation. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test Issue262: problems with Crippen calculation from pickles. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test AMW calculation. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test Exact MW calculation. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test Labute ASA descriptors. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test TPSA descriptors. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test Lipinski parameters. 111: [20:40:19] 111: 111: **** 111: Invariant Violation 111: nonsense 111: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 111: Failed Expression: token != tokens.end() 111: ---------- 111: Stacktrace: 111: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 111: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 111: 2# 0x0000FFFF8FFA3888 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 111: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 111: 4# 0x0000AAAAC31D9484 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: 5# 0x0000AAAAC31D4B60 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: 6# 0x0000FFFF8F52229C in /lib/aarch64-linux-gnu/libc.so.6 111: 7# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 111: 8# 0x0000AAAAC31D4D30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: ---------- 111: **** 111: 111: [20:40:19] 111: 111: **** 111: Invariant Violation 111: nonsense no new line 111: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 111: Failed Expression: token != tokens.end() 111: ---------- 111: Stacktrace: 111: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 111: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 111: 2# 0x0000FFFF8FFA3888 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 111: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 111: 4# 0x0000AAAAC31D9484 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: 5# 0x0000AAAAC31D4B60 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: 6# 0x0000FFFF8F52229C in /lib/aarch64-linux-gnu/libc.so.6 111: 7# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 111: 8# 0x0000AAAAC31D4D30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: ---------- 111: **** 111: 111: [20:40:19] 111: 111: **** 111: Invariant Violation 111: nonsense with tab 111: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 111: Failed Expression: token != tokens.end() 111: ---------- 111: Stacktrace: 111: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 111: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 111: 2# 0x0000FFFF8FFA3888 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 111: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitFragCatalog.so.1 111: 4# 0x0000AAAAC31D9484 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: 5# 0x0000AAAAC31D4B60 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: 6# 0x0000FFFF8F52229C in /lib/aarch64-linux-gnu/libc.so.6 111: 7# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 111: 8# 0x0000AAAAC31D4D30 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 111: ---------- 111: **** 111: 110/243 Test #111: testFragCatalog ........................ Passed 0.35 sec test 114 Start 114: testAUTOCORR2D 114: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testAUTOCORR2D 114: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 114: Test timeout computed to be: 1500 114: [20:40:19] ---------------------------- 114: start test autocorr2D 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test VSA descriptors. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test molecular formula calculation. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test Issue 3415534. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test Issue3433771: Bad definition for Crippen atom type O11. 113: [20:40:19] done 113: [20:40:19] ------------------------------------- 113: [20:40:19] Test multithreading 113: reading molecules 113: processing 113: launch :0 113: launch :1 113: launch :2 113: launch :3 110: .............[20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: [20:40:19] SMILES Parse Error: syntax error while parsing: --- 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] --- 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 110: [20:40:19] dasfsadf 110: .[20:40:19] SMILES Parse Error: syntax error while parsing: mydoghasfleas 110: [20:40:19] SMILES Parse Error: check for mistakes around position 1: 110: [20:40:19] mydoghasfleas 110: [20:40:19] ^ 110: [20:40:19] SMILES Parse Error: Failed parsing SMILES 'mydoghasfleas' for input: 'mydoghasfleas' 114: [20:40:19] done 114: [20:40:19] ------------------------------------- 114: [20:40:19] Test Github #3806: NaNs from AUTOCORR2D descriptor 114: [20:40:19] done 111/243 Test #114: testAUTOCORR2D ......................... Passed 0.17 sec test 115 Start 115: testATF 115: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testATF 115: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 115: Test timeout computed to be: 1500 112/243 Test #115: testATF ................................ Passed 0.01 sec test 116 Start 116: testBCUT 116: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testBCUT 116: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 116: Test timeout computed to be: 1500 116: [20:40:19] ------------------------------------- 116: [20:40:19] Basic BCUT tests. 116: [20:40:19] done 116: [20:40:19] ------------------------------------- 116: [20:40:19] Larger BCUT tests. 110: ....... 110: ---------------------------------------------------------------------- 110: Ran 21 tests in 0.525s 110: 110: OK 110: (Five aromatic carbons And (Not any of Five aromatic carbons)) 110: (Five aromatic carbons Or (Not any of Five aromatic carbons)) 110: (Not (Five aromatic carbons And (Not any of Five aromatic carbons))) 110: ******************************************** 110: Testing: PAINS_A 2 110: ******************************************** 110: Testing: PAINS_B 4 110: ******************************************** 110: Testing: PAINS_C 8 110: ******************************************** 110: Testing: PAINS 14 110: (Not FilterMatcher) 110: Bar 110: Count 1 110: ******************************************** 110: {'Cl,Br,I'} 110: 1 110: 2 110: running 113/243 Test #110: pyFilterCatalog ........................ Passed 0.77 sec test 117 Start 117: testEEM 117: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testEEM 117: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 117: Test timeout computed to be: 1500 117: =>start test EEM 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: 0 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: 100 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: 200 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 116: [20:40:19] ------------------------------------- 116: [20:40:19] Test empty molecule BCUT. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 114/243 Test #116: testBCUT ............................... Passed 0.26 sec test 118 Start 118: testPBF 118: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testPBF 118: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 118: Test timeout computed to be: 1500 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [20:40:19] ------------------------------------- 118: [20:40:19] Basic PBF tests. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: 300 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 118: [20:40:19] done 118: [20:40:19] ------------------------------------- 118: [20:40:19] PBF edge cases. 118: [20:40:19] done 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 115/243 Test #118: testPBF ................................ Passed 0.12 sec 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. test 119 Start 119: testRDFcustom 119: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testRDFcustom 119: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 119: Test timeout computed to be: 1500 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: 400 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: [20:40:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 117: Elapsed time: 0.371917 s 117: Errors:0 117: [20:40:19] test on : 500 molecules done 116/243 Test #117: testEEM ................................ Passed 0.38 sec test 120 Start 120: testRDF 120: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testRDF 120: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 120: Test timeout computed to be: 1500 120: =>start test rdf 120: [20:40:20] test on : 365 molecules done 117/243 Test #120: testRDF ................................ Passed 0.26 sec test 121 Start 121: testMORSE 121: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testMORSE 121: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 121: Test timeout computed to be: 1500 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test Issue252: Bad definitions for Crippen atom types. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test calculation of ChiVs. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test calculation of ChiNs. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test calculation of HallKierAlpha. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test calculation of Kappa1. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test calculation of Kappa2. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test calculation of Kappa3. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test Crippen atom type calculations. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test ring descriptors 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test other count descriptors. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test MQN 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test GitHub Issue 56. 113: [20:40:20] WARNING: not removing hydrogen atom without neighbors 113: [20:40:20] WARNING: not removing hydrogen atom without neighbors 113: [20:40:20] WARNING: not removing hydrogen atom without neighbors 113: [20:40:20] WARNING: not removing hydrogen atom without neighbors 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test Github92: Bad Crippen atom type for pyrrole H. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test Github362: order dependence in Kier-Hall descriptors. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test calculation of spiro and bridgehead counts. 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test Github694: ExactMolWt ignoring the mass of the electron 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Testing Properties and KitchenSink 113: [20:40:20] ---Caught keyerror (bad property name)--- 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test USR Descriptor 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test Github #1702: AUTOCORR2D.h not installed unless RDK_BUILD_DESCRIPTORS3D but is required 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test Github #1973: support P and S terms for TPSA calculation 113: [20:40:20] done 113: [20:40:20] ------------------------------------- 113: [20:40:20] Test Github #2948: Empty molecule has non-zero LabuteASA 113: [20:40:20] done 118/243 Test #113: testDescriptors ........................ Passed 1.06 sec test 122 Start 122: test3D 122: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/test3D 122: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 122: Test timeout computed to be: 1500 119: =>start test rdf custom 119: [20:40:20] test on : 365 molecules done 122: [20:40:20] ------------------------------------- 122: [20:40:20] Basic PMI tests. 122: [20:40:20] done 122: [20:40:20] ------------------------------------- 122: [20:40:20] More PMI/NPR tests. 122: [20:40:20] done 122: [20:40:20] ------------------------------------- 122: [20:40:20] Basic NPR tests. 122: [20:40:20] done 122: [20:40:20] ------------------------------------- 122: [20:40:20] PMI edge cases. 122: [20:40:20] done 122: [20:40:20] ------------------------------------- 122: [20:40:20] NPR edge cases. 122: [20:40:20] done 122: [20:40:20] ------------------------------------- 122: [20:40:20] 3D descriptors. 122: [20:40:20] done 122: [20:40:20] ------------------------------------- 122: [20:40:20] 3D descriptor edge cases. 122: [20:40:20] done 122: [20:40:20] ------------------------------------- 122: [20:40:20] Inertial shape factor. 122: [20:40:20] done 119/243 Test #122: test3D ................................. Passed 0.23 sec test 123 Start 123: testWHIM 123: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testWHIM 123: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 123: Test timeout computed to be: 1500 121: =>start test MORSE 121: =>read file 121: [20:40:20] test on : 365 molecules done 120/243 Test #121: testMORSE .............................. Passed 0.39 sec test 124 Start 124: testGETAWAY 124: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testGETAWAY 124: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 124: Test timeout computed to be: 1500 119: =>start test morse custom 119: [20:40:20] test on : 365 molecules done 123: =>start test WHIM 123: [20:40:20] test on : 365 molecules done 121/243 Test #123: testWHIM ............................... Passed 0.25 sec test 125 Start 125: testAUTOCORR3D 125: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testAUTOCORR3D 125: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 125: Test timeout computed to be: 1500 119: =>start test AUTOCORR3D custom 119: [20:40:20] test on : 365 molecules done 119: =>start test 2 WHIM custom 119: [20:40:20] test on : 365 molecules done 125: =>start test autocorr3D 125: [20:40:20] test on : 365 molecules done 122/243 Test #125: testAUTOCORR3D ......................... Passed 0.20 sec test 126 Start 126: testCoulombMat 126: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/testCoulombMat 126: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 126: Test timeout computed to be: 1500 126: ===================== Testing CoulombMat ======================= 126: CM test 1 mat Done 123/243 Test #126: testCoulombMat ......................... Passed 0.02 sec test 127 Start 127: descriptorsTestCatch 127: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/descriptorsTestCatch 127: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 127: Test timeout computed to be: 1500 119: =>start test 1 WHIM custom 119: [20:40:20] test on : 365 molecules done 127: Randomness seeded to: 4084290880 127: Warning: Atom Count for residue GLU5A does not match expected count 127: Warning: Atom Count for residue ASN39A does not match expected count 127: Warning: Atom Count for residue GLU53A does not match expected count 127: Warning: Atom Count for residue ARG64A does not match expected count 127: Warning: Atom Count for residue LYS80A does not match expected count 127: Warning: Atom Count for residue GLU150A does not match expected count 127: Warning: Atom Count for residue ASN157A does not match expected count 127: Warning: Atom Count for residue GLU5A does not match expected count 127: Warning: Atom Count for residue ASN39A does not match expected count 127: Warning: Atom Count for residue GLU53A does not match expected count 127: Warning: Atom Count for residue ARG64A does not match expected count 127: Warning: Atom Count for residue LYS80A does not match expected count 124: =>start test GETAWAY 124: [20:40:21] test on : 365 molecules done 124/243 Test #124: testGETAWAY ............................ Passed 0.89 sec test 128 Start 128: pyMolDescriptors 128: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Wrap/testMolDescriptors.py" 128: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap 128: Test timeout computed to be: 1500 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: ..[20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: .[20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 128: ..[20:40:21] 128: 128: **** 128: Pre-condition Violation 128: Number of atom props not equal to number of atoms 128: Violation occurred on line 89 in file ./Code/GraphMol/Descriptors/BCUT.cpp 128: Failed Expression: atom_props.size() == num_atoms 128: ---------- 128: Stacktrace: 128: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 128: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 128: 2# RDKit::Descriptors::BCUT2D(RDKit::ROMol const&, std::vector > const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitDescriptors.so.1 128: 3# 0x0000FFFF9B4F8A50 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolDescriptors.so 128: 4# 0x0000FFFF9B520EF4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdMolDescriptors.so 128: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 128: 6# 0x0000FFFF9F582680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 128: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 128: 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 128: 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 128: 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 128: 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 128: 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 128: 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 128: 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 128: 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 128: 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 128: 17# 0x0000FFFF9DA74220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 128: 18# 0x0000FFFF9DA741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 128: 19# 0x0000FFFF9DA74158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 128: 20# 0x0000FFFF9DA740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 128: 21# 0x0000FFFF9DA74084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 128: 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 128: 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 128: 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 128: 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 128: 26# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 128: 27# 0x0000FFFF9F57F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 128: 28# _PyObject_MakeTpCall in /usr/bin/python3 128: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 128: 30# 0x000000000053D490 in /usr/bin/python3 128: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 128: 32# 0x0000000000626920 in /usr/bin/python3 128: 33# 0x00000000005AA5E4 in /usr/bin/python3 128: 34# _PyObject_MakeTpCall in /usr/bin/python3 128: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 128: 36# 0x000000000053D490 in /usr/bin/python3 128: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 128: 38# 0x0000000000626920 in /usr/bin/python3 128: 39# 0x00000000005AA5E4 in /usr/bin/python3 128: 40# _PyObject_MakeTpCall in /usr/bin/python3 128: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 128: 42# 0x000000000053D490 in /usr/bin/python3 128: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 128: 44# 0x0000000000626920 in /usr/bin/python3 128: 45# 0x00000000005AA5E4 in /usr/bin/python3 128: 46# _PyObject_MakeTpCall in /usr/bin/python3 128: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 128: 48# 0x000000000050B134 in /usr/bin/python3 128: 49# _PyObject_MakeTpCall in /usr/bin/python3 128: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 128: 51# PyEval_EvalCode in /usr/bin/python3 128: 52# 0x000000000064AE1C in /usr/bin/python3 128: 53# 0x0000000000646A70 in /usr/bin/python3 128: 54# 0x000000000066A1B0 in /usr/bin/python3 128: 55# 0x0000000000669A54 in /usr/bin/python3 128: 56# 0x00000000006697EC in /usr/bin/python3 128: 57# Py_RunMain in /usr/bin/python3 128: 58# Py_BytesMain in /usr/bin/python3 128: 59# 0x0000FFFF9FEE229C in /lib/aarch64-linux-gnu/libc.so.6 128: 60# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 128: 61# _start in /usr/bin/python3 128: ---------- 128: **** 128: 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 128: Warning: Atom Count for residue GLU5A does not match expected count 127: Warning: Atom Count for residue GLU150A does not match expected count 127: Warning: Atom Count for residue ASN157A does not match expected count 119: =>start test GETAWAY custom 119: [20:40:21] test on : 365 molecules done 125/243 Test #119: testRDFcustom .......................... Passed 2.05 sec test 129 Start 129: pyMolDescriptors3D 129: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Descriptors/Wrap/test3D.py" 129: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap 129: Test timeout computed to be: 1500 128: Warning: Atom Count for residue ASN39A does not match expected count 128: Warning: Atom Count for residue GLU53A does not match expected count 97: 0,0 0 97: 0,1 0 97: 1,0 0 97: 1,1 0 97: 2,0 0 97: 2,1 0 126/243 Test #97: testEnumeration ........................ Passed 4.18 sec test 130 Start 130: testFingerprints 130: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/testFingerprints 130: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 130: Test timeout computed to be: 1500 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: Atoms: 130: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: 1 conj?: 1 130: 1 1->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: a conj?: 1 aromatic?: 1 130: 6 6->7 order: a conj?: 1 aromatic?: 1 130: 7 7->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: 1 conj?: 1 130: 9 8->10 order: a conj?: 1 aromatic?: 1 130: 10 10->1 order: a conj?: 1 aromatic?: 1 130: 11 7->3 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: SMI: Oc1cc2[nH]cnc2c(O)n1 130: Atoms: 130: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: 1 conj?: 1 130: 1 1->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: a conj?: 1 aromatic?: 1 130: 6 6->7 order: a conj?: 1 aromatic?: 1 130: 7 7->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: 1 conj?: 1 130: 9 8->10 order: a conj?: 1 aromatic?: 1 130: 10 10->1 order: a conj?: 1 aromatic?: 1 130: 11 7->3 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: c1(O)cc2[nH]cnc2c(O)n1 130: Atoms: 130: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 1 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: 1 conj?: 1 130: 1 0->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: a conj?: 1 aromatic?: 1 130: 6 6->7 order: a conj?: 1 aromatic?: 1 130: 7 7->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: 1 conj?: 1 130: 9 8->10 order: a conj?: 1 aromatic?: 1 130: 10 10->0 order: a conj?: 1 aromatic?: 1 130: 11 7->3 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: c1c(O)nc(O)c2c1[nH]cn2 130: Atoms: 130: 0 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 2 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 3 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 5 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: a conj?: 1 aromatic?: 1 130: 1 1->2 order: 1 conj?: 1 130: 2 1->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: 1 conj?: 1 130: 5 4->6 order: a conj?: 1 aromatic?: 1 130: 6 6->7 order: a conj?: 1 aromatic?: 1 130: 7 7->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: a conj?: 1 aromatic?: 1 130: 9 9->10 order: a conj?: 1 aromatic?: 1 130: 10 7->0 order: a conj?: 1 aromatic?: 1 130: 11 10->6 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: c12cc(O)nc(O)c1nc[nH]2 130: Atoms: 130: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 3 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: a conj?: 1 aromatic?: 1 130: 1 1->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: 1 conj?: 1 130: 3 2->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: 1 conj?: 1 130: 6 5->7 order: a conj?: 1 aromatic?: 1 130: 7 7->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: a conj?: 1 aromatic?: 1 130: 9 9->10 order: a conj?: 1 aromatic?: 1 130: 10 7->0 order: a conj?: 1 aromatic?: 1 130: 11 10->0 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: [nH]1c2cc(O)nc(O)c2nc1 130: Atoms: 130: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 4 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 7 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 9 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 10 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: a conj?: 1 aromatic?: 1 130: 1 1->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: 1 conj?: 1 130: 4 3->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: a conj?: 1 aromatic?: 1 130: 6 6->7 order: 1 conj?: 1 130: 7 6->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: a conj?: 1 aromatic?: 1 130: 9 9->10 order: a conj?: 1 aromatic?: 1 130: 10 10->0 order: a conj?: 1 aromatic?: 1 130: 11 8->1 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: c1[nH]c2cc(O)nc(O)c2n1 130: Atoms: 130: 0 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 1 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 5 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 8 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 9 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: a conj?: 1 aromatic?: 1 130: 1 1->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: 1 conj?: 1 130: 5 4->6 order: a conj?: 1 aromatic?: 1 130: 6 6->7 order: a conj?: 1 aromatic?: 1 130: 7 7->8 order: 1 conj?: 1 130: 8 7->9 order: a conj?: 1 aromatic?: 1 130: 9 9->10 order: a conj?: 1 aromatic?: 1 130: 10 10->0 order: a conj?: 1 aromatic?: 1 130: 11 9->2 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: n1c[nH]c2cc(O)nc(O)c21 130: Atoms: 130: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 2 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 10 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: a conj?: 1 aromatic?: 1 130: 1 1->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: 1 conj?: 1 130: 6 5->7 order: a conj?: 1 aromatic?: 1 130: 7 7->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: 1 conj?: 1 130: 9 8->10 order: a conj?: 1 aromatic?: 1 130: 10 10->0 order: a conj?: 1 aromatic?: 1 130: 11 10->3 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: c12c(cc(O)nc1O)[nH]cn2 130: Atoms: 130: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 4 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 7 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: a conj?: 1 aromatic?: 1 130: 1 1->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: 1 conj?: 1 130: 4 3->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: a conj?: 1 aromatic?: 1 130: 6 6->7 order: 1 conj?: 1 130: 7 1->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: a conj?: 1 aromatic?: 1 130: 9 9->10 order: a conj?: 1 aromatic?: 1 130: 10 6->0 order: a conj?: 1 aromatic?: 1 130: 11 10->0 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: c1(O)c2c(cc(O)n1)[nH]cn2 130: Atoms: 130: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 1 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: 1 conj?: 1 130: 1 0->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: 1 conj?: 1 130: 6 5->7 order: a conj?: 1 aromatic?: 1 130: 7 3->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: a conj?: 1 aromatic?: 1 130: 9 9->10 order: a conj?: 1 aromatic?: 1 130: 10 7->0 order: a conj?: 1 aromatic?: 1 130: 11 10->2 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: Oc1c2c(cc(O)n1)[nH]cn2 130: Atoms: 130: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: Bonds: 130: 0 0->1 order: 1 conj?: 1 130: 1 1->2 order: a conj?: 1 aromatic?: 1 130: 2 2->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: 1 conj?: 1 130: 6 5->7 order: a conj?: 1 aromatic?: 1 130: 7 3->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: a conj?: 1 aromatic?: 1 130: 9 9->10 order: a conj?: 1 aromatic?: 1 130: 10 7->1 order: a conj?: 1 aromatic?: 1 130: 11 10->2 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: SMI: n1c(O)cc2[nH]cnc2c1O 130: Atoms: 130: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 2 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: 3 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 6 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 130: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 130: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 9 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 130: 10 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 130: Bonds: 130: 0 0->1 order: a conj?: 1 aromatic?: 1 130: 1 1->2 order: 1 conj?: 1 130: 2 1->3 order: a conj?: 1 aromatic?: 1 130: 3 3->4 order: a conj?: 1 aromatic?: 1 130: 4 4->5 order: a conj?: 1 aromatic?: 1 130: 5 5->6 order: a conj?: 1 aromatic?: 1 130: 6 6->7 order: a conj?: 1 aromatic?: 1 130: 7 7->8 order: a conj?: 1 aromatic?: 1 130: 8 8->9 order: a conj?: 1 aromatic?: 1 130: 9 9->10 order: 1 conj?: 1 130: 10 9->0 order: a conj?: 1 aromatic?: 1 130: 11 8->4 order: a conj?: 1 aromatic?: 1 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: 130: 130: 130: 130: 130: 130: 130: 130: ------------------- 130: 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Morgan Fingerprints. 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Morgan Fingerprints using fromAtoms argument. 128: Warning: Atom Count for residue ARG64A does not match expected count 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Morgan Fingerprints as bit vects. 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Morgan Fingerprints with feature invariants. 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test additional Morgan fingerprints options. 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Atom Codes. 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Atom Pairs. 130: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Atom Pairs part 2. 130: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:21] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Topological Torsions. 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] done 130: [20:40:21] ------------------------------------- 130: [20:40:21] Test Bulk Topological Torsions. 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:21] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: Warning: Atom Count for residue LYS80A does not match expected count 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test Hashed Atom Pairs. 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test Hashed torsions. 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test Rooted Atom Pairs. 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test ignoring atoms in Atom Pairs. 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test Rooted Topological Torsions. 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test ignoring atoms in Topological Torsions. 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test atom info from morgan fingerprints. 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test atom info from morgan fingerprints including Info Redundant Environments. 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] ------------------------------------- 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] ------------------------------------- 130: [20:40:22] ------------------------------------- 130: [20:40:22] ------------------------------------- 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test Atom Pairs including info about chirality. 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test Topological Torsions including info about chirality. 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test GitHub Issue 25: fingerprint backwards compatibility. 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test GitHub Issue 151: PatternFingerprint problems 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test 3D atom pairs. 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test GitHub Issue 195: GenMACCSKeys() raises an exception with an empty molecule 130: [20:40:22] done 130: [20:40:22] ------------------------------------- 130: [20:40:22] Test multithreading with the pattern FP 130: reading molecules 130: pass 1 130: launch :0 130: launch :1 130: launch :2 130: launch :3 129: ........ 129: ---------------------------------------------------------------------- 129: Ran 8 tests in 0.092s 129: 129: OK 127/243 Test #129: pyMolDescriptors3D ..................... Passed 0.32 sec test 131 Start 131: testMHFPFingerprint 131: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/testMHFPFingerprint 131: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 131: Test timeout computed to be: 1500 131: [20:40:22] ------------------------------------- 131: [20:40:22] Test MHFP fingerprint encoder initialization 131: [20:40:22] done 131: [20:40:22] ------------------------------------- 131: [20:40:22] Test MHFP shingling creation 131: [20:40:22] done 131: [20:40:22] ------------------------------------- 131: [20:40:22] Test MHFP hashing of string and uint arrays 131: [20:40:22] done 131: [20:40:22] ------------------------------------- 131: [20:40:22] Test SECFP fingerprint functionality 130: pass 2 130: launch :0 130: launch :1 130: launch :2 130: launch :3 131: [20:40:22] done 128/243 Test #131: testMHFPFingerprint .................... Passed 0.04 sec test 132 Start 132: testFingerprintGenerators 132: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/testFingerprintGenerators 132: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 132: Test timeout computed to be: 1500 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test atom-pair fp generator 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test atom-pair fp generator with different arguments 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test compatibility between atom pair implementation for FingerprintGenerator and old atom pairs implementation 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test atom-pair additional output 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Folded Atom Pairs. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Rooted Atom Pairs. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test ignoring atoms in Atom Pairs. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Atom Pairs including info about chirality. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Morgan Fingerprints. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test morgan fp generator 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Morgan Fingerprints using fromAtoms argument. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Morgan Fingerprints as bit vects. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Morgan Fingerprints with feature invariants. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test additional Morgan fingerprints options. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test GitHub Issue 695: Include cis/trans stereochemistry when useChirality=true with the morgan fingerprints 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Single atoms setting radius 1 bits in Morgan fingerprints 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test different invariant generator combinations 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test invariant overriding 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test RDKit fp generator 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test unfolded version of RDKFP 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test topological torsion fp generator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Topological Torsions. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Folded torsions. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Bulk Topological Torsions. 128: Warning: Atom Count for residue GLU150A does not match expected count 128: Warning: Atom Count for residue ASN157A does not match expected count 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Rooted Topological Torsions. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test ignoring atoms in Topological Torsions. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test Topological Torsions including info about chirality. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test GitHub Issue 25: fingerprint backwards compatibility. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test GitHub Issue 334: explicit Hs in SMILES modifies atom pair (and topological torsion) FP. 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test GitHub Issue 811: rooted atom fingerprint non identical for the same molecules #811 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test convenience and bulk fp calculation functions 132: [20:40:22] done 132: [20:40:22] ------------------------------------- 132: [20:40:22] Test GitHub Issue #6958 132: [20:40:22] DEPRECATION WARNING: please use AtomPairGenerator 129/243 Test #132: testFingerprintGenerators .............. Passed 0.44 sec test 133 Start 133: fpTestCatch 133: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/fpTestCatch 133: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 133: Test timeout computed to be: 1500 133: Randomness seeded to: 3434628359 133: =============================================================================== 133: All tests passed (188 assertions in 16 test cases) 133: 130/243 Test #133: fpTestCatch ............................ Passed 0.02 sec test 134 Start 134: fpGenTestCatch 134: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/fpGenTestCatch 134: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 134: Test timeout computed to be: 1500 134: Randomness seeded to: 3150267213 134: =============================================================================== 134: All tests passed (2737 assertions in 7 test cases) 134: 131/243 Test #134: fpGenTestCatch ......................... Passed 0.06 sec test 135 Start 135: pyTestGenerator 135: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap/testGenerators.py" 135: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap 135: Test timeout computed to be: 1500 135: .............. 135: ---------------------------------------------------------------------- 135: Ran 14 tests in 0.109s 135: 135: OK 132/243 Test #135: pyTestGenerator ........................ Passed 0.38 sec test 136 Start 136: pyTestMHFP 136: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Fingerprints/Wrap/testMHFP.py" 136: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap 136: Test timeout computed to be: 1500 136: ... 136: ---------------------------------------------------------------------- 136: Ran 3 tests in 0.061s 136: 136: OK 133/243 Test #136: pyTestMHFP ............................. Passed 0.34 sec test 137 Start 137: testPartialCharges 137: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/testPartialCharges 137: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges 137: Test timeout computed to be: 1500 134/243 Test #137: testPartialCharges ..................... Passed 0.01 sec test 138 Start 138: pyPartialCharges 138: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/PartialCharges/Wrap/testPartialCharges.py" 138: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap 138: Test timeout computed to be: 1500 138: ....... 138: ---------------------------------------------------------------------- 138: Ran 7 tests in 0.048s 138: 138: OK 127: Warning: Atom Count for residue GLU5A does not match expected count 127: Warning: Atom Count for residue ASN39A does not match expected count 127: Warning: Atom Count for residue GLU53A does not match expected count 127: Warning: Atom Count for residue ARG64A does not match expected count 135/243 Test #138: pyPartialCharges ....................... Passed 0.26 sec test 139 Start 139: testMolTransforms 139: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/testMolTransforms 139: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms 139: Test timeout computed to be: 1500 127: Warning: Atom Count for residue LYS80A does not match expected count 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Test GitHub Issue 258: Bad pattern fingerprint for query molecule 127: Warning: Atom Count for residue GLU150A does not match expected count 127: Warning: Atom Count for residue ASN157A does not match expected count 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Test GitHub Issue 334: explicit Hs in SMILES modifies atom pair (and topological torsion) FP. 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Test GitHub Issue 695: Include cis/trans stereochemistry when useChirality=true with the morgan fingerprints 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Test GitHub Issue 811: rooted atom fingerprint non identical for the same molecules #811 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Test unfolded version of RDKFP 130: [20:40:23] ------------------------------------- 130: [20:40:23] Test bitinfo of RDKFP 130: 562: [ 2 ], 130: 709: [ 0 1 ], 130: 1118: [ 0 1 2 ], 130: 1183: [ 1 2 ], 130: 1233: [ 0 1 2 ], 130: 1308: [ 0 ], [ 1 ], 130: 1339: [ 2 ], 130: 1728: [ 1 2 ], 130: 1772: [ 0 ], [ 1 ], 130: 1813: [ 0 1 ], 130: ------------ 130: [20:40:23] ------------------------------------- 130: [20:40:23] Single atoms setting radius 1 bits in Morgan fingerprints 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Github #879: Pattern fingerprint should set bits for single-atom fragments. 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Github #1496: Pattern fingerprint setting bad bits for degree zero atoms 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Github #1793: Fingerprint segfaults with branchedPaths=False and useHs=False 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Github #1993: fingerprinters that use R/S labels should force a call to assignStereochemistry() if it hasn't already been called 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use AtomPairGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Github #2115: BitInfo not complete for RDKFingerprint 130: [20:40:23] done 130: [20:40:23] ------------------------------------- 130: [20:40:23] Github #3723: Fingerprint crash for mols with Zero order bonds 130: [20:40:23] done 136/243 Test #130: testFingerprints ....................... Passed 1.78 sec test 140 Start 140: molTransformsTestCatch 140: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/molTransformsTestCatch 140: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms 140: Test timeout computed to be: 1500 140: Randomness seeded to: 988219902 140: =============================================================================== 140: All tests passed (8 assertions in 2 test cases) 140: 137/243 Test #140: molTransformsTestCatch ................. Passed 0.02 sec test 141 Start 141: pyMolTransforms 141: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolTransforms/Wrap/testMolTransforms.py" 141: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap 141: Test timeout computed to be: 1500 127: =============================================================================== 127: All tests passed (789 assertions in 11 test cases) 127: 138/243 Test #127: descriptorsTestCatch ................... Passed 2.87 sec test 142 Start 142: forceFieldHelpersCatch 142: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/forceFieldHelpersCatch 142: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers 142: Test timeout computed to be: 1500 139: *********************************************************** 139: Testing MolTransforms 139: --------------------------------- 139: test1Canonicalization 139: 139: --------------------------------- 139: testGetSetBondLength 139: 139: --------------------------------- 139: testGetSetAngle 139: 139: --------------------------------- 139: testGetSetDihedral 139: 139: --------------------------------- 139: testGetSetDihedralThroughTripleBond 139: 139: --------------------------------- 139: testGithub1262: PMI descriptors incorrect 139: 139: --------------------------------- 139: testGithub1908: CanonicalizeMol() distorting bond lengths 139: 139: --------------------------------- 139: testGithub4302: native computeCanonicalTransform() generates non-canonical coords 139: 139: --------------------------------- 139: testWeightedCentroid 139: 139: *********************************************************** 139/243 Test #139: testMolTransforms ...................... Passed 0.05 sec test 143 Start 143: testMMFFForceFieldHelpers 143: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFForceFieldHelpers 143: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF 143: Test timeout computed to be: 1500 143: [20:40:23] ------------------------------------- 143: [20:40:23] Test MMFF atom types. 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing MMFF builder tools. 142: Randomness seeded to: 4228137823 142: =============================================================================== 142: All tests passed (17 assertions in 2 test cases) 142: 140/243 Test #142: forceFieldHelpersCatch ................. Passed 0.04 sec test 144 Start 144: testMMFFForceFieldHelpersMultiThread 144: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFForceFieldHelpersMultiThread 144: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF 144: Test timeout computed to be: 1500 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing MMFF builder+minimization. 144: [20:40:23] ------------------------------------- 144: [20:40:23] Test MMFF multithreading 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing Issue239. 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing calcEnergy with passed coords. 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing calcGrad. 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing Issue242. 144: processing 144: launch :0 144: launch :1 144: launch :2 144: launch :3 144: launch :4 144: launch :5 144: launch :6 144: launch :7 144: launch :8 144: launch :9 144: launch :10 144: launch :11 144: launch :12 144: launch :13 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing github 308: crash during MMFF parameterization . 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing SFIssue1653802. 144: launch :14 144: launch :15 144: launch :16 144: launch :17 144: launch :18 144: launch :19 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Testing SFIssue2378119. 144: launch :20 144: launch :21 144: launch :22 144: launch :23 143: [20:40:23] done 143: [20:40:23] ------------------------------------- 143: [20:40:23] Test MMFF force-field parameter getters. 143: [20:40:23] ------------------------------------- 143: [20:40:23] Test MMFF multithreading 143: generating reference data 141: ........ 141: ---------------------------------------------------------------------- 141: Ran 8 tests in 0.020s 141: 141: OK 141/243 Test #141: pyMolTransforms ........................ Passed 0.21 sec test 145 Start 145: testUFFForceFieldHelpers 145: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/testUFFForceFieldHelpers 145: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF 145: Test timeout computed to be: 1500 145: [20:40:23] ------------------------------------- 145: [20:40:23] Test UFF atom labels. 145: [20:40:23] done 145: [20:40:23] ------------------------------------- 145: [20:40:23] Test UFF atom typer. 145: [20:40:23] done 145: [20:40:23] ------------------------------------- 145: [20:40:23] Testing UFF builder tools. 145: [20:40:23] done 145: [20:40:23] ------------------------------------- 145: [20:40:23] Testing UFF builder+minimization. 144: done 144: [20:40:23] done 142/243 Test #144: testMMFFForceFieldHelpersMultiThread ... Passed 0.24 sec test 146 Start 146: testCrystalForceField 146: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalForceField 146: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF 146: Test timeout computed to be: 1500 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Testing UFF special cases. 145: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 0 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Testing Issue239. 146: ------------------------------------- 146: Test CrystalFF torsional term. 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Testing calcEnergy with passed coords. 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Testing calcGrad. 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Testing SFIssue1653802. 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Testing SFIssue2378119. 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Test UFF force-field parameter getters. 145: [20:40:24] ------------------------------------- 145: [20:40:24] Testing handling missing parameters. 145: [20:40:24] UFFTYPER: Unrecognized hybridization for atom: 0 145: [20:40:24] UFFTYPER: Unrecognized atom type: Cu+1 (0) 145: [20:40:24] UFFTYPER: Unrecognized hybridization for atom: 0 145: [20:40:24] UFFTYPER: Unrecognized atom type: Cu+1 (0) 143: processing 143: launch :0 143: launch :1 143: launch :2 143: [20:40:24] Rep: 0 Mol:0 launch :3 143: [20:40:24] Rep: 0 Mol:2 143: [20:40:24] Rep: 0 Mol:1 143: 143: [20:40:24] Rep: 0 Mol:3 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Testing SFIssue3009337. 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Test UFF multithreading 143: [20:40:24] Rep: 0 Mol:5 143: [20:40:24] Rep: 0 Mol:9 145: generating reference data 143: [20:40:24] Rep: 0 Mol:13 143: [20:40:24] Rep: 0 Mol:7 143: [20:40:24] Rep: 0 Mol:11 143: [20:40:24] Rep: 0 Mol:17 143: [20:40:24] Rep: 0 Mol:15 143: [20:40:24] Rep: 0 Mol:19 143: [20:40:24] Rep: 0 Mol:23 143: [20:40:24] Rep: 0 Mol:4 143: [20:40:24] Rep: 0 Mol:27 143: [20:40:24] Rep: 0 Mol:31 143: [20:40:24] Rep: 0 Mol:21 143: [20:40:24] Rep: 0 Mol:6 143: [20:40:24] Rep: 0 Mol:25 143: [20:40:24] Rep: 0 Mol:10 143: [20:40:24] Rep: 0 Mol:8 143: [20:40:24] Rep: 0 Mol:29 143: [20:40:24] Rep: 0 Mol:12 143: [20:40:24] Rep: 0 Mol:16 143/243 Test #146: testCrystalForceField .................. Passed 0.11 sec test 147 Start 147: pyForceFieldHelpers 147: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ForceFieldHelpers/Wrap/testHelpers.py" 147: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap 147: Test timeout computed to be: 1500 143: [20:40:24] Rep: 0 Mol:14 143: [20:40:24] Rep: 0 Mol:20 143: [20:40:24] Rep: 0 Mol:18 143: [20:40:24] Rep: 0 Mol:24 143: [20:40:24] Rep: 0 Mol:28 143: [20:40:24] Rep: 0 Mol:22 143: [20:40:24] Rep: 0 Mol:26 143: [20:40:24] Rep: 0 Mol:30 143: [20:40:24] Rep: 20 Mol:3 143: [20:40:24] Rep: 20 Mol:7 143: [20:40:24] Rep: 20 Mol:11 143: [20:40:24] Rep: 20 Mol:15 143: [20:40:24] Rep: 20 Mol:19 143: [20:40:24] Rep: 20 Mol:23 143: [20:40:24] Rep: 20 Mol:27 143: [20:40:24] Rep: 20 Mol:31 128: 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 143: [20:40:24] Rep: 20 Mol:1 143: [20:40:24] Rep: 20 Mol:5 143: [20:40:24] Rep: 20 Mol:9 143: [20:40:24] Rep: 20 Mol:13 143: [20:40:24] Rep: 20 Mol:17 143: [20:40:24] Rep: 20 Mol:21 143: [20:40:24] Rep: 20 Mol:25 128: Warning: Atom Count for residue GLU150A does not match expected count 128: Warning: Atom Count for residue ASN157A does not match expected count 143: [20:40:24] Rep: 20 Mol:29 145: processing 145: launch :0 145: launch :1 145: launch :2 145: launch :3 145: [20:40:24] Rep: 0 Mol:1 145: [20:40:24] Rep: 0 Mol:0 145: [20:40:24] Rep: 0 Mol:2 145: [20:40:24] Rep: 0 Mol:5 145: [20:40:24] Rep: 0 Mol:3 145: [20:40:24] Rep: 0 Mol:4 145: [20:40:24] Rep: 0 Mol:9 128: .[20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: .[20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: ..[20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 128: .[20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: ...[20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 128: [20:40:24] DEPRECATION WARNING: please use MorganGenerator 145: [20:40:24] Rep: 0 Mol:13 145: [20:40:24] Rep: 0 Mol:6 145: [20:40:24] Rep: 0 Mol:8 145: [20:40:24] Rep: 0 Mol:10 145: [20:40:24] Rep: 0 Mol:7 145: [20:40:24] Rep: 0 Mol:12 145: [20:40:24] Rep: 0 Mol:11 145: [20:40:24] Rep: 0 Mol:16 145: [20:40:24] Rep: 0 Mol:15 145: [20:40:24] Rep: 0 Mol:17 128: ....[20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 145: [20:40:24] Rep: 0 Mol:20 128: ....[20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 128: [20:40:24] DEPRECATION WARNING: please use AtomPairGenerator 145: [20:40:24] Rep: 0 Mol:19 128: .[20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: ..[20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 145: [20:40:24] Rep: 0 Mol:23 145: [20:40:24] Rep: 0 Mol:27 128: .[20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128: [20:40:24] DEPRECATION WARNING: please use TopologicalTorsionGenerator 145: [20:40:24] Rep: 0 Mol:24 128: ... 128: ---------------------------------------------------------------------- 128: Ran 31 tests in 2.613s 128: 128: OK 128: exactmw 78.046950192 128: amw 78.11399999999999 128: lipinskiHBA 0.0 128: lipinskiHBD 0.0 128: NumRotatableBonds 0.0 128: NumHBD 0.0 128: NumHBA 0.0 128: NumHeavyAtoms 6.0 128: NumAtoms 12.0 128: NumHeteroatoms 0.0 128: NumAmideBonds 0.0 128: FractionCSP3 0.0 128: NumRings 1.0 128: NumAromaticRings 1.0 128: NumAliphaticRings 0.0 128: NumSaturatedRings 0.0 128: NumHeterocycles 0.0 128: NumAromaticHeterocycles 0.0 128: NumSaturatedHeterocycles 0.0 128: NumAliphaticHeterocycles 0.0 128: NumSpiroAtoms 0.0 128: NumBridgeheadAtoms 0.0 128: NumAtomStereoCenters 0.0 128: NumUnspecifiedAtomStereoCenters 0.0 128: labuteASA 37.43140311949697 128: tpsa 0.0 128: CrippenClogP 1.6866 128: CrippenMR 26.441999999999993 128: chi0v 3.464101615137755 128: chi1v 2.0000000000000004 128: chi2v 0.6666666666666671 128: chi3v 0.6666666666666671 128: chi4v 0.38490017945975075 128: chi0n 3.464101615137755 128: chi1n 2.0000000000000004 128: chi2n 0.6666666666666671 128: chi3n 0.6666666666666671 128: chi4n 0.38490017945975075 128: hallKierAlpha -0.78 128: kappa1 3.4115708812260532 128: kappa2 1.6057694396735218 128: kappa3 0.5823992601400448 128: Phi 0.9130327103921437 128: CustomNumAtoms 6.0 128: exactmw 78.046950192 128: lipinskiHBA 0.0 145: [20:40:24] Rep: 0 Mol:28 145: [20:40:24] Rep: 0 Mol:31 143: [20:40:24] Rep: 40 Mol:3 143: [20:40:24] Rep: 40 Mol:7 145: [20:40:24] Rep: 0 Mol:14 145: [20:40:24] Rep: 0 Mol:21 143: [20:40:24] Rep: 40 Mol:11 143: [20:40:24] Rep: 40 Mol:15 143: [20:40:24] Rep: 40 Mol:19 143: [20:40:24] Rep: 40 Mol:23 143: [20:40:24] Rep: 40 Mol:27 143: [20:40:24] Rep: 40 Mol:31 145: [20:40:24] Rep: 0 Mol:18 145: [20:40:24] Rep: 0 Mol:25 143: [20:40:24] Rep: 20 Mol:0 145: [20:40:24] Rep: 0 Mol:22 145: [20:40:24] Rep: 0 Mol:26 145: [20:40:24] Rep: 0 Mol:29 143: [20:40:24] Rep: 20 Mol:4 145: [20:40:24] Rep: 0 Mol:30 143: [20:40:24] Rep: 20 Mol:8 143: [20:40:24] Rep: 20 Mol:12 143: [20:40:24] Rep: 20 Mol:16 143: [20:40:24] Rep: 20 Mol:20 143: [20:40:24] Rep: 20 Mol:24 143: [20:40:24] Rep: 20 Mol:28 144/243 Test #128: pyMolDescriptors ....................... Passed 2.90 sec test 148 Start 148: testDistGeomHelpers 148: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/testDistGeomHelpers 148: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers 148: Test timeout computed to be: 1500 143: [20:40:24] Rep: 40 Mol:1 143: [20:40:24] Rep: 40 Mol:5 143: [20:40:24] Rep: 40 Mol:9 143: [20:40:24] Rep: 40 Mol:13 143: [20:40:24] Rep: 40 Mol:17 143: [20:40:24] Rep: 20 Mol:2 143: [20:40:24] Rep: 20 Mol:6 143: [20:40:24] Rep: 40 Mol:21 143: [20:40:24] Rep: 20 Mol:10 143: [20:40:24] Rep: 40 Mol:25 143: [20:40:24] Rep: 40 Mol:29 143: [20:40:24] Rep: 20 Mol:14 143: [20:40:24] Rep: 20 Mol:18 143: [20:40:24] Rep: 20 Mol:22 143: [20:40:24] Rep: 20 Mol:26 143: [20:40:24] Rep: 20 Mol:30 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: ..[20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 148: [20:40:24] ******************************************************** 148: [20:40:24] Testing DistGeomHelpers 148: [20:40:24] --------------------------------- 148: [20:40:24] test2 148: 148: go 148: ------------------------------------- 148: 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 143: [20:40:24] Rep: 60 Mol:3 143: [20:40:24] Rep: 60 Mol:7 143: [20:40:24] Rep: 60 Mol:11 143: [20:40:24] Rep: 60 Mol:15 143: [20:40:24] Rep: 60 Mol:19 143: [20:40:24] Rep: 60 Mol:23 143: [20:40:24] Rep: 60 Mol:27 143: [20:40:24] Rep: 60 Mol:31 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: .[20:40:24] UFFTYPER: Unrecognized hybridization for atom: 0 147: [20:40:24] UFFTYPER: Unrecognized atom type: Cu+1 (0) 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: .[20:40:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: .[20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: ...[20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 143: [20:40:24] Rep: 40 Mol:0 143: [20:40:24] Rep: 40 Mol:4 143: [20:40:24] Rep: 40 Mol:8 143: [20:40:24] Rep: 40 Mol:12 143: [20:40:24] Rep: 40 Mol:16 143: [20:40:24] Rep: 40 Mol:20 143: [20:40:24] Rep: 40 Mol:24 143: [20:40:24] Rep: 40 Mol:28 147: [20:40:24] Molecule does not have explicit Hs. Consider calling AddHs() 143: [20:40:24] Rep: 60 Mol:1 147: ... 147: ---------------------------------------------------------------------- 147: Ran 19 tests in 0.094s 147: 147: OK 143: [20:40:24] Rep: 60 Mol:5 143: [20:40:24] Rep: 60 Mol:9 143: [20:40:24] Rep: 60 Mol:13 143: [20:40:24] Rep: 60 Mol:17 143: [20:40:24] Rep: 60 Mol:21 143: [20:40:24] Rep: 60 Mol:25 143: [20:40:24] Rep: 60 Mol:29 143: [20:40:24] Rep: 80 Mol:3 143: [20:40:24] Rep: 80 Mol:7 143: [20:40:24] Rep: 80 Mol:11 143: [20:40:24] Rep: 80 Mol:15 143: [20:40:24] Rep: 80 Mol:19 143: [20:40:24] Rep: 80 Mol:23 143: [20:40:24] Rep: 80 Mol:27 143: [20:40:24] Rep: 80 Mol:31 143: [20:40:24] Rep: 40 Mol:2 143: [20:40:24] Rep: 40 Mol:6 143: [20:40:24] Rep: 40 Mol:10 143: [20:40:24] Rep: 40 Mol:14 143: [20:40:24] Rep: 40 Mol:18 143: [20:40:24] Rep: 40 Mol:22 143: [20:40:24] Rep: 40 Mol:26 143: [20:40:24] Rep: 40 Mol:30 145/243 Test #147: pyForceFieldHelpers .................... Passed 0.31 sec test 149 Start 149: distGeomHelpersCatch 149: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/distGeomHelpersCatch 149: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers 149: Test timeout computed to be: 1500 143: [20:40:24] Rep: 60 Mol:0 143: [20:40:24] Rep: 60 Mol:4 143: [20:40:24] Rep: 60 Mol:8 143: [20:40:24] Rep: 60 Mol:12 143: [20:40:24] Rep: 60 Mol:16 143: [20:40:24] Rep: 60 Mol:20 143: [20:40:24] Rep: 60 Mol:24 143: [20:40:24] Rep: 60 Mol:28 149: Randomness seeded to: 2510857212 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [OX2:1][CX4:2]!@;-[CX4:3][N:4]: 32 31 30 33, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 149: [20:40:24] [OX2:1][CX4:2]!@;-[CX4:3][N:4]: 48 46 45 49, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 36 37 38 39, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 37 38 39 40, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 38 39 40 41, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 97 98 99 100, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 98 99 100 101, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 0 1 2 3, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 1 2 4 5, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 20 22 23 24, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 22 23 25 26, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 34 36 37 38, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 66 67 68 69, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 84 85 86 87, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 149: [20:40:24] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 96 97 98 99, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [*:1][X3,X2:2]=[X3,X2:3][*:4]: 101 102 104 220, [(1 0), (-1 100), (1 0), (1 0), (1 0), (1 0)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [$([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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] 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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [!#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)] 149: [20:40:24] [!#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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: ----------- 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [$([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)] 149: [20:40:24] [$([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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] 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)] 149: [20:40:24] 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)] 149: [20:40:24] [!#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)] 149: [20:40:24] [!#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)] 149: [20:40:24] [!#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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: ----------- 143: [20:40:24] Rep: 80 Mol:1 143: [20:40:24] Rep: 80 Mol:5 143: [20:40:24] Rep: 80 Mol:9 143: [20:40:24] Rep: 80 Mol:13 143: [20:40:24] Rep: 80 Mol:17 143: [20:40:24] Rep: 80 Mol:21 143: [20:40:24] Rep: 80 Mol:25 143: [20:40:24] Rep: 80 Mol:29 149: [20:40:24] [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)] 149: [20:40:24] [$([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)] 149: [20:40:24] [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)] 149: [20:40:24] 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)] 149: ----------- 149: ----------- 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [$(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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 149: [20:40:24] [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)] 145: [20:40:24] Rep: 100 Mol:3 145: [20:40:24] Rep: 100 Mol:7 145: [20:40:24] Rep: 100 Mol:11 145: [20:40:24] Rep: 100 Mol:15 145: [20:40:24] Rep: 100 Mol:19 145: [20:40:24] Rep: 100 Mol:23 145: [20:40:24] Rep: 100 Mol:27 145: [20:40:24] Rep: 100 Mol:31 145: [20:40:24] Rep: 100 Mol:0 145: [20:40:24] Rep: 100 Mol:4 145: [20:40:24] Rep: 100 Mol:8 145: [20:40:24] Rep: 100 Mol:12 145: [20:40:24] Rep: 100 Mol:16 145: [20:40:24] Rep: 100 Mol:20 145: [20:40:24] Rep: 100 Mol:24 145: [20:40:24] Rep: 100 Mol:28 149: [20:40:24] UFFTYPER: Unrecognized atom type: Pt5+2 (1) 143: [20:40:24] Rep: 80 Mol:0 143: [20:40:24] Rep: 80 Mol:4 143: [20:40:24] Rep: 60 Mol:2 143: [20:40:24] Rep: 80 Mol:8 143: [20:40:24] Rep: 80 Mol:12 143: [20:40:24] Rep: 80 Mol:16 143: [20:40:24] Rep: 60 Mol:6 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 1 143: [20:40:24] Rep: 60 Mol:10 143: [20:40:24] Rep: 80 Mol:20 143: [20:40:24] Rep: 60 Mol:14 143: [20:40:24] Rep: 60 Mol:18 143: [20:40:24] Rep: 60 Mol:22 143: [20:40:24] Rep: 60 Mol:26 143: [20:40:24] Rep: 60 Mol:30 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 1 143: [20:40:24] Rep: 80 Mol:24 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 1 143: [20:40:24] Rep: 80 Mol:28 145: [20:40:24] Rep: 100 Mol:1 145: [20:40:24] Rep: 100 Mol:5 145: [20:40:24] Rep: 100 Mol:9 145: [20:40:24] Rep: 100 Mol:13 145: [20:40:24] Rep: 100 Mol:17 145: [20:40:24] Rep: 100 Mol:21 145: [20:40:24] Rep: 100 Mol:25 145: [20:40:24] Rep: 100 Mol:29 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 5 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 5 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 5 143: [20:40:24] Rep: 80 Mol:2 143: [20:40:24] Rep: 80 Mol:6 143: [20:40:24] Rep: 80 Mol:10 143: [20:40:24] Rep: 80 Mol:14 143: [20:40:24] Rep: 80 Mol:18 143: [20:40:24] Rep: 80 Mol:22 143: [20:40:24] Rep: 80 Mol:26 143: [20:40:24] Rep: 80 Mol:30 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 6 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 6 145: [20:40:24] Rep: 100 Mol:2 145: [20:40:24] Rep: 100 Mol:6 145: [20:40:24] Rep: 100 Mol:10 145: [20:40:24] Rep: 100 Mol:14 145: [20:40:24] Rep: 100 Mol:18 145: [20:40:24] Rep: 100 Mol:22 145: [20:40:24] Rep: 100 Mol:26 145: [20:40:24] Rep: 100 Mol:30 149: [20:40:24] UFFTYPER: Unrecognized charge state for atom: 6 143: [20:40:24] done 143: [20:40:24] ------------------------------------- 143: [20:40:24] Test MMFF multithreading2 145: [20:40:24] done 145: [20:40:24] ------------------------------------- 145: [20:40:24] Test UFF multithreading2 143: [20:40:25] done 143: [20:40:25] ------------------------------------- 143: [20:40:25] Test MMFF multithreading3 148: [20:40:24] --------------------------------- 148: [20:40:24] test3 148: 148: [20:40:24] --------------------------------- 148: [20:40:24] test4 148: 148: [20:40:24] --------------------------------- 148: [20:40:24] test5 148: 148: [20:40:24] --------------------------------- 148: [20:40:24] test6 148: 148: [20:40:24] --------------------------------- 148: [20:40:24] test15Dists 148: 148: [20:40:24] --------------------------------- 148: [20:40:24] test Issue 215 148: 148: [20:40:24] --------------------------------- 148: [20:40:24] testMultipleConfs 148: 148: [20:40:24] --------------------------------- 148: [20:40:24] testMultipleConfsExpTors 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testIssue227 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testIssue236 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testOrdering 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testIssue244 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testIssue251 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testIssue276 148: [20:40:25] --------------------------------- 148: [20:40:25] testIssue284 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testIssue285 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testIssue355 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] testRandomCoords 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test sf.net issue 1989539 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test sf.net issue 2091864 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test constrained embedding 148: 148: [20:40:25] ssd: 0.0752641 148: [20:40:25] ssd: 0.0659363 148: [20:40:25] --------------------------------- 148: [20:40:25] test sf.net issue 2091974 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test sf.net issue 2835784 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test sf.net issue 3019283 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test sf.net issue 3238580 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test sf.net issue 3483968 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test github issue 55 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test1 148: 148: [20:40:25] --------------------------------- 148: [20:40:25] test multi-threading 148: 148: building molecules 148: generating reference data 149: [20:40:25] UFFTYPER: Warning: hybridization set to SP3 for atom 6 149: [20:40:25] UFFTYPER: Warning: hybridization set to SP3 for atom 6 145: [20:40:25] done 145: [20:40:25] ------------------------------------- 145: [20:40:25] Test UFF multithreading3 149: [20:40:25] UFFTYPER: Warning: hybridization set to SP3 for atom 6 143: [20:40:25] done 143: [20:40:25] ------------------------------------- 143: [20:40:25] Testing github 162: Incorrect SMILES after MMFF parameterization . 143: [20:40:25] done 143: [20:40:25] ------------------------------------- 143: [20:40:25] Testing github 224: crash during MMFF parameterization . 143: [20:40:25] done 143: [20:40:25] ------------------------------------- 143: [20:40:25] Testing github6728: crash due to missing stretch-bend params. 146/243 Test #143: testMMFFForceFieldHelpers .............. Passed 1.66 sec test 150 Start 150: pyDistGeomHelpers 150: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/DistGeomHelpers/Wrap/testDistGeom.py" 150: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap 150: Test timeout computed to be: 1500 149: [20:40:25] UFFTYPER: Warning: hybridization set to SP3 for atom 11 149: [20:40:25] UFFTYPER: Warning: hybridization set to SP3 for atom 11 149: [20:40:25] UFFTYPER: Warning: hybridization set to SP3 for atom 11 145: [20:40:25] done 145: [20:40:25] ------------------------------------- 145: [20:40:25] Testing GitHubIssue62. 145: [20:40:25] beta-lactam 39.6387 145: [20:40:25] cyclopropanone 174.698 145: [20:40:25] aziridine 337.986 145: [20:40:25] aziridinone 115.248 145: [20:40:25] isobutene 2.48217 145: [20:40:25] acetone 1.91788 145: [20:40:25] cyclopentanone 10.1648 145: [20:40:25] cyclopropene 99.4921 145: [20:40:25] cyclobutene 41.0156 145: [20:40:25] cyclopropane 267.236 145: [20:40:25] gamma-lactam 15.7471 145: [20:40:25] trans-2,3-diphenylcyclopropan-1-one 203.398 150: .[20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 145: [20:40:25] cis-2,3-diphenylcyclopropan-1-one 206.852 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 145: [20:40:25] 2,3-diphenylcyclopropa-2-en-1-one 20.0443 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 145: [20:40:25] cyclopropylidencyclobutane 218.879 150: ..[20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: ..[20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: .[20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 145: [20:40:25] diphenylmethylidencyclobutane 79.6139 145: [20:40:25] done 145: [20:40:25] ------------------------------------- 145: [20:40:25] Test Github Issue 613: UFF Atom type not properly assigned to lanthanides. 145: [20:40:25] done 145: [20:40:25] ------------------------------------- 145: [20:40:25] Test square planar complexes 145: [20:40:25] done 145: [20:40:25] ------------------------------------- 145: [20:40:25] Test octahedral complexes 145: [20:40:25] done 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 147/243 Test #145: testUFFForceFieldHelpers ............... Passed 1.92 sec test 151 Start 151: testMolAlign 151: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/testMolAlign 151: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign 151: Test timeout computed to be: 1500 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 151: *********************************************************** 151: Testing MolAlign 151: --------------------------------- 151: test1MolAlign 151: 151: --------------------------------- 151: test1GetBestRMS 151: 151: --------------------------------- 151: test1MolWithQueryAlign 151: 151: --------------------------------- 151: test2AtomMap 151: 151: --------------------------------- 151: test3Weights 151: 151: --------------------------------- 151: testIssue241 151: 151: *********************************************************** 148/243 Test #151: testMolAlign ........................... Passed 0.10 sec test 152 Start 152: testO3AAlign 152: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/testO3AAlign 152: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign 152: Test timeout computed to be: 1500 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:25] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: .[20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 148: validating reference data 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:26] Molecule does not have explicit Hs. Consider calling AddHs() 148: processing 148: launch :0 148: launch :1 148: launch :2 148: launch :3 150: [20:40:27] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:27] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:27] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:27] Molecule does not have explicit Hs. Consider calling AddHs() 150: .[20:40:27] Molecule does not have explicit Hs. Consider calling AddHs() 152: *********************************************************** 152: Testing O3AAlign 152: --------------------------------- 152: testMMFFO3A 152: 152: --------------------------------- 152: testMMFFO3A with pre-computed dmat and MolHistogram 152: 152: --------------------------------- 152: testMMFFO3A with constraints 152: 152: --------------------------------- 152: testMMFFO3A with variable weight constraints followed by local-only optimization 152: 152: --------------------------------- 152: testCrippenO3A 152: 152: --------------------------------- 152: testCrippenO3A with pre-computed dmat and MolHistogram 152: 152: --------------------------------- 152: testCrippenO3A with constraints 152: 152: --------------------------------- 152: testCrippenO3A with variable weight constraints followed by local-only optimization 152: 152: --------------------------------- 152: testMMFFO3A multithreading 152: 152: generating reference data 152: processing 152: launch :0 152: launch :1 152: launch :2 152: launch :3 152: --------------------------------- 152: test O3A multithreading bug 152: 152: --------------------------------- 152: testCrippenO3A multithreading 152: 152: generating reference data 150: .........[20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: .[20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: .[20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 150: [20:40:36] Molecule does not have explicit Hs. Consider calling AddHs() 152: processing 152: launch :0 152: launch :1 152: launch :2 152: launch :3 150: .... 150: ---------------------------------------------------------------------- 150: Ran 23 tests in 12.558s 150: 150: OK 149/243 Test #150: pyDistGeomHelpers ...................... Passed 13.02 sec test 153 Start 153: molAlignCatchTest 153: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/molAlignCatchTest 153: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign 153: Test timeout computed to be: 1500 153: Randomness seeded to: 2020897277 153: 21969841 153: 21980841 153: 653535349 153: 322520963 153: =============================================================================== 153: All tests passed (73 assertions in 3 test cases) 153: 150/243 Test #153: molAlignCatchTest ...................... Passed 1.07 sec test 154 Start 154: pyMolAlign 154: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolAlign/Wrap/testMolAlign.py" 154: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap 154: Test timeout computed to be: 1500 149: [20:40:43] UFFTYPER: Unrecognized atom type: S_6+6 (0) 149: [20:40:43] UFFTYPER: Warning: hybridization set to SP3 for atom 0 149: [20:40:43] UFFTYPER: Unrecognized charge state for atom: 0 152: --------------------------------- 152: test getO3AForProbeConfs 152: 152: *********************************************************** 151/243 Test #152: testO3AAlign ........................... Passed 18.21 sec test 155 Start 155: testFeatures 155: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 155: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures 155: Test timeout computed to be: 1500 155: [20:40:44] ------------------------------------- 155: [20:40:44] AtomType parser testing. 155: [20:40:44] SMARTS Parse Error: syntax error while parsing: [$([!$([NH0])_100;N,O,$([S])_101,$([N,O)_102])_103] 155: [20:40:44] SMARTS Parse Error: check for mistakes around position 40: 155: [20:40:44] ,O,$([S])_101,$([N,O)_102])_103] 155: [20:40:44] ~~~~~~~~~~~~~~~~~~~~^ 155: [20:40:44] SMARTS Parse Error: Failed parsing SMARTS '[$([!$([NH0])_100;N,O,$([S])_101,$([N,O)_102])_103]' for input: '[$([!$([NH0]);N,O,$([S]),$([N,O)])]' 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] FeatureDefinition parser testing. 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Test pulling feat defs from a string. 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] FeatureDef functionality testing. 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] FeatureFactory testing. 155: [20:40:44] 1 155: [20:40:44] 2 155: [20:40:44] 3 155: [20:40:44] 4 155: [20:40:44] 5 155: [20:40:44] 6 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Feature Location testing. 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Test building a FeatureFactory from a file 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Testing Issue 224. 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Testing Issue 225. 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Test Issue346 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Test Issue347 155: [20:40:44] done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Testing Issue 348. 155: [20:40:44] SMARTS Parse Error: syntax error while parsing: [C[C] 155: [20:40:44] SMARTS Parse Error: check for mistakes around position 3: 155: [20:40:44] [C[C] 155: [20:40:44] ~~^ 155: [20:40:44] SMARTS Parse Error: Failed parsing SMARTS '[C[C]' for input: '[C[C]' 155: [20:40:44] ------------------------------------- 155: [20:40:44] Testing Nested AtomType definitions. 155: [$([$([$([C;!$(C=[O,N,P,S]);!$(C#N)]),c]);R])] 155: [20:40:44] ------------------------------------- 155: [20:40:44] Testing Github Issue #252: crash when calling getPos() with no conformer. 155: [20:40:44] expect a precondition failure message below 155: [20:40:44] 155: 155: **** 155: Pre-condition Violation 155: molecule has no conformers 155: Violation occurred on line 37 in file ./Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp 155: Failed Expression: dp_mol->getNumConformers() 155: ---------- 155: Stacktrace: 155: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 155: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 155: 2# RDKit::MolChemicalFeature::getPos(int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitMolChemicalFeatures.so.1 155: 3# RDKit::MolChemicalFeature::getPos() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitMolChemicalFeatures.so.1 155: 4# 0x0000AAAADD28C080 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 155: 5# 0x0000AAAADD2845E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 155: 6# 0x0000FFFFA0A3229C in /lib/aarch64-linux-gnu/libc.so.6 155: 7# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 155: 8# 0x0000AAAADD2847B0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 155: ---------- 155: **** 155: 155: [20:40:44] Done 155: [20:40:44] ------------------------------------- 155: [20:40:44] Testing github 2077: add confId argument to MolChemicalFeatureFactor::getFeaturesForMol() 155: [20:40:44] done 152/243 Test #155: testFeatures ........................... Passed 0.02 sec test 156 Start 156: pyChemicalFeatures 156: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolChemicalFeatures/Wrap/testChemicalFeatures.py" 156: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap 156: Test timeout computed to be: 1500 156: .[20:40:44] Molecule does not have explicit Hs. Consider calling AddHs() 156: .[20:40:44] Molecule does not have explicit Hs. Consider calling AddHs() 156: ..[20:40:44] Molecule does not have explicit Hs. Consider calling AddHs() 156: .[20:40:44] Molecule does not have explicit Hs. Consider calling AddHs() 156: .[20:40:44] SMARTS Parse Error: syntax error while parsing: [N,O;!HQ] 156: [20:40:44] SMARTS Parse Error: check for mistakes around position 8: 156: [20:40:44] [N,O;!HQ] 156: [20:40:44] ~~~~~~~^ 156: [20:40:44] SMARTS Parse Error: Failed parsing SMARTS '[N,O;!HQ]' for input: '[N,O;!HQ]' 156: ... 156: ---------------------------------------------------------------------- 156: Ran 9 tests in 0.058s 156: 156: OK 153/243 Test #156: pyChemicalFeatures ..................... Passed 0.37 sec test 157 Start 157: testShapeHelpers 157: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/testShapeHelpers 157: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers 157: Test timeout computed to be: 1500 157: *********************************************************** 157: Testing ShapeHelpers 157: --------------------------------- 157: test1Encode 157: 157: --------------------------------- 157: test2Compare 157: 157: --------------------------------- 157: testGithub4364 157: 157: *********************************************************** 154/243 Test #157: testShapeHelpers ....................... Passed 0.02 sec test 158 Start 158: pyShapeHelpers 158: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ShapeHelpers/Wrap/testShapeHelpers.py" 158: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap 158: Test timeout computed to be: 1500 158: . 158: ---------------------------------------------------------------------- 158: Ran 1 test in 0.026s 158: 158: OK 158: Testing Shape Helpers wrapper 155/243 Test #158: pyShapeHelpers ......................... Passed 0.21 sec test 159 Start 159: testMolCatalog 159: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/testMolCatalog 159: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog 159: Test timeout computed to be: 1500 156/243 Test #159: testMolCatalog ......................... Passed 0.01 sec test 160 Start 160: pyMolCatalog 160: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolCatalog/Wrap/rough_test.py" 160: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap 160: Test timeout computed to be: 1500 160: . 160: ---------------------------------------------------------------------- 160: Ran 1 test in 0.005s 160: 160: OK 157/243 Test #160: pyMolCatalog ........................... Passed 0.19 sec test 161 Start 161: moldraw2DTest1 161: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DTest1 161: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D 161: Test timeout computed to be: 1500 161: ----------------- Test 1 161: file test1_1.svg gave hash 3840925078U not the expected 1617157703U 161: file test1_2.svg gave hash 4194425583U not the expected 1799670018U 161: file test1_3.svg gave hash 2250867576U not the expected 2382509631U 161: file test1_4.svg gave hash 3594410820U not the expected 4252277495U 161: file test1_5.svg gave hash 1851587463U not the expected 2811480876U 161: file test1_6.svg gave hash 2011746003U not the expected 2635907956U 161: Done 161: ----------------- Test 2 161: file test2_1.png gave hash 3986971853U not the expected 638584804U 161: file test2_2.png gave hash 2592863213U not the expected 610424244U 161: file test2_3.png gave hash 2294574389U not the expected 2179746375U 161: Done 161: ----------------- Test 4 161: file test4_1.png gave hash 3462840168U not the expected 3993974247U 161: file test4_1.svg gave hash 3190217401U not the expected 4157966746U 161: Done 161: ----------------- Test 5 161: file test5_1.png gave hash 1481971426U not the expected 571291290U 161: file test5_1.svg gave hash 1295559538U not the expected 4074479420U 161: file test5_2.png gave hash 408007297U not the expected 97265124U 161: file test5_3.png gave hash 1430199106U not the expected 606188176U 161: Done 161: ----------------- Test 6 (atom labels) 161: file test6_1.svg gave hash 3280384589U not the expected 3623418420U 161: file test6_2.svg gave hash 501263637U not the expected 3885689795U 161: file test6_3.svg gave hash 2009537997U not the expected 2753286335U 161: Done 161: ----------------- Test 7 (backgrounds) 161: file test7_1.svg gave hash 843981570U not the expected 1967202587U 161: file test7_1.png gave hash 2605212490U not the expected 1322246680U 161: file test7_2.svg gave hash 282341648U not the expected 4217504234U 161: file test7_2.png gave hash 2496336878U not the expected 1499012715U 161: Done 161: ----------------- Test8: PrepareMolDrawing 161: Done 161: ----------------- Test multi-threaded drawing 161: reading molecules 161: generating reference drawings 161: processing 161: launch :0 161: launch :1 161: launch :2 161: launch :3 154: .............[20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:45] Molecule does not have explicit Hs. Consider calling AddHs() 154: ...[20:40:47] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:47] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:47] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:47] Molecule does not have explicit Hs. Consider calling AddHs() 154: [20:40:47] Molecule does not have explicit Hs. Consider calling AddHs() 154: ... 154: ---------------------------------------------------------------------- 154: Ran 19 tests in 7.917s 154: 154: OK 154: Testing MolAlign Wrappers 158/243 Test #154: pyMolAlign ............................. Passed 8.28 sec test 162 Start 162: moldraw2DTestCatch 162: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DTestCatch 162: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D 162: Test timeout computed to be: 1500 162: Randomness seeded to: 530866017 162: file testAtomTags_1.svg gave hash 3542197767U not the expected 3187798125U 162: file testAtomTags_2.svg gave hash 1648758889U not the expected 822910240U 162: file testAtomTags_3.svg gave hash 410848479U not the expected 2244078420U 162: file contourMol_1.svg gave hash 1749387692U not the expected 3634867913U 162: file contourMol_2.svg gave hash 3371803390U not the expected 1815941817U 162: file contourMol_3.svg gave hash 3458913990U not the expected 2579392727U 162: file contourMol_4.svg gave hash 3208914131U not the expected 2914799663U 162: file contourMol_5.svg gave hash 2595550724U not the expected 3792684719U 162: file contourMol_6.svg gave hash 1450249302U not the expected 1743220181U 162: file contourMol_7.svg gave hash 4053301088U not the expected 2221193310U 162: file testFoundations_1.svg gave hash 2283802316U not the expected 2350247048U 162: file testFoundations_2.svg gave hash 2468031318U not the expected 15997352U 162: file testTest_1.svg gave hash 2468031318U not the expected 15997352U 162: file testKekulizationProblems_1.svg gave hash 3327452096U not the expected 2284161107U 162: file testAtomBondIndices_1.svg gave hash 616201599U not the expected 2702803018U 162: file testAtomBondIndices_2.svg gave hash 1572186777U not the expected 1564350363U 162: file testAtomBondIndices_3.svg gave hash 2607897548U not the expected 1346662812U 162: file testAtomBondIndices_4.svg gave hash 1781316380U not the expected 662361891U 162: file testAtomBondIndices_5.svg gave hash 793323137U not the expected 1502163147U 162: file testAtomBondIndices_6.svg gave hash 698046127U not the expected 1659568104U 162: file testGithub3226_1.svg gave hash 22593684U not the expected 831257877U 162: file testGithub3226_1.png gave hash 2812555500U not the expected 3165135374U 162: file testGithub3226_2.svg gave hash 4138091576U not the expected 3517325227U 162: file testGithub3226_2.png gave hash 1283329694U not the expected 643975155U 162: file testGithub3226_3.svg gave hash 3404095735U not the expected 3609721552U 162: file testGithub3226_3.png gave hash 2323908705U not the expected 3119571946U 162: file testPNGMetadata_1.png gave hash 2509107217U not the expected 997629701U 162: file testPNGMetadata_2.png gave hash 748024399U not the expected 1797853056U 162: file testGithub3369_1.svg gave hash 3375138088U not the expected 1227653771U 162: file testIncludeRadicals_1a.svg gave hash 1368422441U not the expected 1829641340U 162: file testLegendsAndDrawing-1.svg gave hash 1557849637U not the expected 3563802758U 162: file testGithub3577-1.svg gave hash 3105871660U not the expected 763116213U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-1.svg gave hash 4223601249U not the expected 2253418236U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-1.png gave hash 1458570240U not the expected 3894611804U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-2.svg gave hash 3213069550U not the expected 794717511U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-2.png gave hash 1717036333U not the expected 1443443188U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-3.svg gave hash 2935473441U not the expected 3982694296U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-3.png gave hash 2780147607U not the expected 865629432U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-4.svg gave hash 1833763060U not the expected 2146113517U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-4.png gave hash 2253573871U not the expected 3919767093U 162: file testHandDrawn-5a.svg gave hash 3580963342U not the expected 1567781555U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-5b.svg gave hash 2293088095U not the expected 66354106U 162: [20:40:48] Font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/ComicNeue-Regular.ttf not found. 162: [20:40:48] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 162: file testHandDrawn-5.png gave hash 3016126506U not the expected 828378555U 162: file testBrackets-1a.svg gave hash 64586795U not the expected 4189399574U 162: file testBrackets-1b.svg gave hash 219987106U not the expected 3773894816U 162: file testBrackets-1c.svg gave hash 64586795U not the expected 4189399574U 162: file testBrackets-1d.svg gave hash 219987106U not the expected 3773894816U 162: file testBrackets-1e.svg gave hash 3788532828U not the expected 2492125470U 162: file testBrackets-2a.svg gave hash 574382548U not the expected 1050851904U 162: file testBrackets-2b.svg gave hash 1148554894U not the expected 776446765U 162: file testBrackets-2c.svg gave hash 574382548U not the expected 1050851904U 162: file testBrackets-2d.svg gave hash 1148554894U not the expected 776446765U 162: file testBrackets-3a.svg gave hash 55347162U not the expected 3096284602U 162: file testBrackets-4a.svg gave hash 4109127586U not the expected 3837821771U 162: file testBrackets-4b.svg gave hash 3897543317U not the expected 1477006167U 162: file testBrackets-5a.svg gave hash 1236934849U not the expected 1447240271U 162: file testBrackets-5768.svg gave hash 2223513506U not the expected 2559120196U 162: file testSGroupData-1a.svg gave hash 2340055151U not the expected 426096222U 162: file testSGroupData-1b.svg gave hash 2886132663U not the expected 1688385103U 162: file testSGroupData-3a.svg gave hash 713845791U not the expected 62481132U 162: file testSGroupData-2a.svg gave hash 1798361530U not the expected 195363059U 162: file testSGroupData-2b.svg gave hash 1739798573U not the expected 942041938U 162: file testSGroupData-3a.svg gave hash 713845791U not the expected 62481132U 162: file testPositionVariation-1.svg gave hash 1250593729U not the expected 1347003808U 162: file testPositionVariation-1b.svg gave hash 2900880626U not the expected 3269244452U 162: file testPositionVariation-2.svg gave hash 2404588724U not the expected 473948585U 162: file testPositionVariation-3.svg gave hash 1954108374U not the expected 4039188982U 162: file testPositionVariation-4.svg gave hash 1793821079U not the expected 3407574474U 162: file testNoAtomLabels-1.svg gave hash 574617410U not the expected 4255907058U 162: file testNoAtomLabels-2.svg gave hash 3194451719U not the expected 3643749531U 162: file testQueryBonds-1a.svg gave hash 4014427809U not the expected 1525751327U 162: file testQueryBonds-1b.svg gave hash 2936984779U not the expected 2239724223U 162: file testQueryBonds-1c.svg gave hash 3871378016U not the expected 2434786487U 162: file testQueryBonds-2.svg gave hash 2707675342U not the expected 3399320861U 162: file testLinkNodes-2-0.svg gave hash 4034645063U not the expected 145749789U 162: file testLinkNodes-2-30.svg gave hash 672481277U not the expected 3203923109U 162: file testLinkNodes-2-60.svg gave hash 705226084U not the expected 2004079267U 162: file testLinkNodes-2-90.svg gave hash 3571272174U not the expected 171994932U 162: file testLinkNodes-2-120.svg gave hash 230633195U not the expected 673333745U 162: file testLinkNodes-2-150.svg gave hash 1751250656U not the expected 51965551U 162: file testLinkNodes-2-180.svg gave hash 1099619505U not the expected 433020402U 162: file testMolAnnotations-1.svg gave hash 4186871544U not the expected 1638024035U 162: file testMolAnnotations-2a.svg gave hash 993933032U not the expected 3029896996U 162: file testMolAnnotations-2b.svg gave hash 764542382U not the expected 3110016833U 162: file testMolAnnotations-2c.svg gave hash 3637581889U not the expected 611992302U 162: file testMolAnnotations-3a.svg gave hash 2967880938U not the expected 55379064U 162: file testMolAnnotations-3b.svg gave hash 2827440022U not the expected 936144383U 162: file testMolAnnotations-3c.svg gave hash 3940820727U not the expected 3983292921U 162: file testMolAnnotations-3d.svg gave hash 2455786422U not the expected 748075045U 162: file testMolAnnotations-4a.svg gave hash 684780546U not the expected 3474490519U 162: file testLinkNodes-1-0.svg gave hash 1742740041U not the expected 3845035394U 162: file testLinkNodes-1-30.svg gave hash 290570218U not the expected 3207457801U 162: file testLinkNodes-1-60.svg gave hash 293757258U not the expected 2620138210U 162: file testLinkNodes-1-90.svg gave hash 2184207504U not the expected 1457485851U 162: file testLinkNodes-1-120.svg gave hash 1777381842U not the expected 4267267665U 162: file testLinkNodes-1-150.svg gave hash 3520382532U not the expected 574622776U 162: file testLinkNodes-1-180.svg gave hash 638488040U not the expected 2541146503U 162: file testGithub3744.svg gave hash 1280540500U not the expected 387800653U 162: file testAtomLists-1.svg gave hash 1504296447U not the expected 1887579391U 162: file testAtomLists-2.svg gave hash 3251029350U not the expected 555139782U 162: file testIsoDummyIso.svg gave hash 3319443622U not the expected 2405371137U 162: file testNoIsoDummyIso.svg gave hash 1461272805U not the expected 748558214U 162: file testIsoNoDummyIso.svg gave hash 2432588025U not the expected 3054263824U 162: file testNoIsoNoDummyIso.svg gave hash 247862132U not the expected 1185561148U 162: file testHydrogenBonds1.svg gave hash 2225826152U not the expected 2605974904U 162: [20:40:48] unrecognized bond typefile testHydrogenBonds2.svg gave hash 4149192934U not the expected 645414593U 162: file testGithub2976.svg gave hash 827785853U not the expected 4194649417U 162: file testReactionCoords.svg gave hash 3403716630U not the expected 798999015U 162: file testAnnotationColors.svg gave hash 2161803217U not the expected 3297011749U 162: file testGithub4238_1.svg gave hash 3856931975U not the expected 842841477U 162: file testGithub4238_1.png gave hash 1612259880U not the expected 2623427676U 162: file testGithub4323_1.svg gave hash 3737732114U not the expected 2536621192U 162: file testGithub4323_2.svg gave hash 2985792549U not the expected 2120846759U 162: file testGithub4323_3.svg gave hash 1806358430U not the expected 4156867630U 162: file testGithub4323_4.svg gave hash 3413065852U not the expected 3824125601U 162: file testGithub4323_1.png gave hash 106384585U not the expected 3075787867U 161: Done 161: ----------------- Test Github #781: Rendering single-atom molecules 161: file testGithub781_3.svg gave hash 1424857602U not the expected 1463918610U 161: Done 161: ----------------- Test 3 161: file test3_1.png gave hash 1283919575U not the expected 675908852U 161: file test3_1.svg gave hash 1328776415U not the expected 586189704U 161: file test3_2.png gave hash 4040402152U not the expected 2452584093U 161: file test3_2.svg gave hash 1481229521U not the expected 1700916148U 161: file test3_3.png gave hash 3081615373U not the expected 1907006999U 161: file test3_3.svg gave hash 2929562003U not the expected 1375178959U 161: file test3_4.png gave hash 3529036785U not the expected 2305641511U 161: file test3_4.svg gave hash 587248216U not the expected 187720898U 161: file test3_5.png gave hash 2758251182U not the expected 3842605920U 161: file test3_5.svg gave hash 1096665289U not the expected 300865579U 161: file test3_6.png gave hash 3828082483U not the expected 662622011U 161: file test3_6.svg gave hash 132485380U not the expected 729637096U 161: file test3_7.png gave hash 3664813892U not the expected 469729412U 161: file test3_7.svg gave hash 2714589700U not the expected 2700118064U 161: Done 161: ----------------- Test Github774: upside-down drawings 161: file test774_1.png gave hash 15835157U not the expected 428322245U 161: file test774_1.svg gave hash 493103591U not the expected 1108618931U 162: file testGithub4323_3.png gave hash 337842488U not the expected 381907253U 162: file testGithub4508_1.svg gave hash 711057613U not the expected 2047652713U 162: [20:40:48] FIELDDISP info not found for DAT SGroup which isn't associated with an atom. SGroup will not be rendered. 162: file testGithub4508_1b.svg gave hash 3491849265U not the expected 2681019776U 161: file test774_2.png gave hash 835177286U not the expected 4095288521U 162: file testGithub4508_2.svg gave hash 1811468860U not the expected 1382076550U 161: file test774_2.svg gave hash 439562358U not the expected 577567569U 161: Done 161: ----------------- Test 9 (molecule legends) 161: file test9_1.svg gave hash 1315528346U not the expected 1484349178U 161: Done 161: ----------------- Test Github852: Lines used to wedge bonds are too thick 162: file testGithub4508_2b.svg gave hash 964213742U not the expected 4005636724U 162: file testGithub4538.svg gave hash 2600997525U not the expected 2550818801U 162: file testDarkMode.1.svg gave hash 1154231353U not the expected 4157562958U 161: file test852_1.png gave hash 4160048374U not the expected 271517011U 161: file test852_1.svg gave hash 508042113U not the expected 2306783336U 162: file testMonochrome.1.svg gave hash 4022443314U not the expected 482290994U 162: file testMonochrome.2.svg gave hash 3148679451U not the expected 2128285153U 161: file test852_2.png gave hash 101373672U not the expected 967452082U 162: file testAvalon.1.svg gave hash 2803567763U not the expected 477303888U 161: file test852_2.svg gave hash 1235654907U not the expected 936665195U 161: ---------------- 161: file test852_2a.svg gave hash 3083849041U not the expected 3499587182U 161: ---------------- 161: file test852_2b.svg gave hash 3189714155U not the expected 2141021605U 161: ---------------- 161: file test852_2c.svg gave hash 1651720250U not the expected 465009830U 161: ---------------- 161: file test852_2d.svg gave hash 3277332536U not the expected 714117851U 161: Done 161: ----------------- Test Github860: Atom symbols in wrong order if bond comes from right 162: file testCDK.1.svg gave hash 882351452U not the expected 1764612361U 162: file testGithub4519_1.svg gave hash 2664633857U not the expected 736612670U 162: file testGithub4519_2.svg gave hash 1584629953U not the expected 171503813U 161: file test860_1.png gave hash 1469402068U not the expected 2835587240U 162: file testGithub4519_3.svg gave hash 848820494U not the expected 3396792960U 161: file test860_1.svg gave hash 718471937U not the expected 4071399203U 161: file test860_2.png gave hash 3737792988U not the expected 1116015475U 162: file testGithub4519_4.svg gave hash 1522152095U not the expected 3875957215U 161: file test860_2.svg gave hash 4123557700U not the expected 3926063275U 161: file test860_3.png gave hash 2286418920U not the expected 1872467868U 161: file test860_3.svg gave hash 1139264144U not the expected 2583192182U 161: Done 161: ----------------- Test Github #910: ugly coordinates generated for peptide chains 161: file test910_1.svg gave hash 285277080U not the expected 2101353772U 161: file test910_2.svg gave hash 2184604098U not the expected 3090433026U 161: Done 161: ----------------- Test Github #932: mistake in SVG for wedged bonds 161: Done 161: ----------------- Test Github #953: default color should not be cyan 161: Done 161: ----------------- Test Github #983: wedged bonds between chiral centers drawn improperly 161: file test983_1.svg gave hash 977581182U not the expected 2373378601U 161: file test983_2.svg gave hash 1176297024U not the expected 2571223561U 161: Done 161: ----------------- Test Deuterium, Tritium 161: Done 161: ----------------- Test crossed bonds 161: file crossed_bonds.svg gave hash 2357548724U not the expected 3239666213U 161: Done 161: ----------------- Testing drawing a second molecule 161: file test10_1.svg gave hash 3149901024U not the expected 502155973U 161: file test10_2.svg gave hash 762048470U not the expected 3289667916U 161: file test10_3.svg gave hash 2365222328U not the expected 2681596657U 161: file test10_4.svg gave hash 1082559408U not the expected 2620790292U 161: file test10_5.svg gave hash 955314118U not the expected 2715569518U 161: file test10_6.svg gave hash 3863669925U not the expected 2984792612U 161: Done 161: ----------------- Testing drawing a grid of molecules 161: file test11_1.svg gave hash 2252080194U not the expected 568621130U 161: file test11_2.svg gave hash 736149105U not the expected 1278518938U 161: Done 161: ----------------- Testing drawMolecules 162: file testBaseFontSize.1a.svg gave hash 3665607409U not the expected 1295117205U 161: file test12_1.svg gave hash 4164245664U not the expected 826649652U 161: file test12_5.svg gave hash 276992328U not the expected 3309074342U 161: file test12_3.svg gave hash 4115567988U not the expected 3930752601U 161: file test12_4.svg gave hash 4115567988U not the expected 3930752601U 161: file test12_2.svg gave hash 1965660361U not the expected 3096703157U 161: Done 161: ----------------- Test JSON Configuration 161: file test13_1.svg gave hash 3950170009U not the expected 3606927863U 161: Done 161: ----------------- Testing github 1090: escape html characters in SVG output 162: file testBaseFontSize.1b.svg gave hash 1542403068U not the expected 3595811515U 161: Done 161: ----------------- Testing github 1035: overflow bug in SVG color generation 161: Done 161: ----------------- Testing github 1271: MolDraw2D not drawing anything for molecules aligned with the X or Y axes 161: file test1271_5.svg gave hash 30235138U not the expected 1050442325U 161: Done 161: ----------------- Testing github 1322: add custom atom labels 161: file test1322_1.svg gave hash 1987069228U not the expected 843693353U 161: file test1322_2.svg gave hash 2060269415U not the expected 2204609576U 161: Done 161: ----------------- Testing use of a black & white palette 161: file test14_1.svg gave hash 2593240709U not the expected 3999745197U 161: file test14_2.svg gave hash 1180313442U not the expected 1367250174U 161: Done 161: ----------------- Testing use of continuous highlighting with drawMolecules 161: file test15_1.svg gave hash 2305259583U not the expected 2704862730U 161: file test15_2.svg gave hash 2442984749U not the expected 659023204U 161: Done 161: ----------------- Test 17 - Testing maximum font size 161: file test17_1.svg gave hash 2260184712U not the expected 75329691U 161: file test17_2.svg gave hash 659077001U not the expected 2699803606U 161: file test17_3.svg gave hash 1926066932U not the expected 2996396838U 161: file test17_4.svg gave hash 4133942323U not the expected 2390212603U 161: Done 161: ----------------- Testing github 1829: crash when drawMolecules() is called with an empty list 161: Done 161: ----------------- Testing use of fixed scales for drawing. 161: file test18_1.svg gave hash 3803337242U not the expected 1704156856U 161: file test18_2.svg gave hash 1162085066U not the expected 597526679U 161: file test18_3.svg gave hash 611461919U not the expected 3425044116U 161: file test18_4.svg gave hash 1663260716U not the expected 1519252882U 161: file test18_5.svg gave hash 806463379U not the expected 486224214U 161: file test18_6.svg gave hash 2349283164U not the expected 3016814772U 161: file test18_7.svg gave hash 4093037200U not the expected 926168958U 162: file testBaseFontSize.2a.svg gave hash 1704350166U not the expected 2958687877U 161: Done 161: ----------------- Testing rotation of 2D drawing. 161: file test19_1.svg gave hash 407580005U not the expected 4060393720U 161: file test19_2.svg gave hash 2240088107U not the expected 4171949096U 161: Done 161: ----------------- Testing inclusion of molecule metadata 161: file test16_1.svg gave hash 4200111826U not the expected 62134348U 161: file test16_2.svg gave hash 2122610691U not the expected 3050459518U 161: Done 161: ----------------- Testing Github2063: Drawing racemic bond stereo as crossed bonds should be the default 161: file testGithub2063_1.svg gave hash 992781977U not the expected 1908318348U 161: file testGithub2063_2.svg gave hash 992781977U not the expected 1908318348U 161: Done 161: ----------------- Testing Github2151: MolDraw2D: line width should be controlled by MolDrawOptions 161: file testGithub2151_1.svg gave hash 2395078931U not the expected 4119581143U 161: file testGithub2151_2.svg gave hash 1129101623U not the expected 425960913U 161: Done 161: ----------------- Testing testGithub2762: MolDraw2D: HCl and ethane should be drawn 161: Done 161: ----------------- Testing testGithub2931: multi-coloured molecule highlights. 161: file testGithub2931_1.svg gave hash 3546086819U not the expected 3635831631U 161: file testGithub2931_2.svg gave hash 1878682670U not the expected 2281185190U 161: file testGithub2931_3.svg gave hash 3365274231U not the expected 2885834646U 161: file testGithub2931_4.svg gave hash 2300990986U not the expected 709559976U 161: Done 161: ----------------- Testing annotation of 2D Drawing. 162: file testBaseFontSize.2b.svg gave hash 3344593609U not the expected 1786972332U 162: file testFlexiCanvas.1a.svg gave hash 2376791495U not the expected 2633733362U 162: file testFlexiCanvas.1b.svg gave hash 2472371250U not the expected 1541095928U 161: file test20_1.png gave hash 1938743260U not the expected 200877868U 162: file testFlexiCanvas.1c.svg gave hash 2797251846U not the expected 3204351481U 162: file testFlexiCanvas.1d.svg gave hash 3190671363U not the expected 1753089731U 162: file testFlexiCanvas.2.svg gave hash 269007759U not the expected 665664909U 161: file test20_1.svg gave hash 2129450275U not the expected 4276517022U 162: file testFlexiCanvas.2a.png gave hash 816512823U not the expected 2609920321U 162: file testFlexiCanvas.2b.png gave hash 2120145716U not the expected 3615599154U 162: file testSemiFlexiCanvas.1a.svg gave hash 2472371250U not the expected 1541095928U 161: file test20_2.png gave hash 4083668985U not the expected 1651164846U 161: file test20_2.svg gave hash 2507367286U not the expected 2037634551U 162: file testSemiFlexiCanvas.1b.svg gave hash 2474894189U not the expected 3020732451U 162: file testFlexiCanvas.3.svg gave hash 1836444545U not the expected 3544316588U 162: file testFlexiCanvas.4a.svg gave hash 2890365484U not the expected 1486952473U 162: file testFlexiCanvas.4b.svg gave hash 1548512529U not the expected 1957607740U 162: file testFlexiCanvas.4c.svg gave hash 3188013578U not the expected 3955371857U 161: file test20_3.png gave hash 1520659280U not the expected 1463603076U 162: file testFlexiCanvas.4d.svg gave hash 752620351U not the expected 1137945621U 162: file testFlexiCanvas.5a.svg gave hash 2640129938U not the expected 3968863584U 161: file test20_3.svg gave hash 2727796707U not the expected 2689385188U 162: file testFlexiCanvas.5b.svg gave hash 2785796829U not the expected 649567318U 162: file testFlexiCanvas.5c.svg gave hash 1946333790U not the expected 1826396133U 161: file test20_4.png gave hash 3326508190U not the expected 1714613205U 162: file testFlexiCanvas.5d.svg gave hash 1052911796U not the expected 1730603480U 162: file testFlexiCanvas.6a.svg gave hash 2747664988U not the expected 3085867303U 161: file test20_4.svg gave hash 3418327955U not the expected 4113839132U 161: Done 161: ----------------- Test 21 - different font 162: file testFlexiCanvas.6b.svg gave hash 106899373U not the expected 2819164642U 161: file test21_1.svg gave hash 2878173336U not the expected 390968884U 162: file testFlexiCanvas.6c.svg gave hash 2747664988U not the expected 3085867303U 161: file test21_2.svg gave hash 216260646U not the expected 3050176664U 161: Done 161: ----------------- Test 22 - draw explicit methyls. 161: file test22_1.svg gave hash 3426768357U not the expected 3688394300U 162: file testFlexiCanvas.6d.svg gave hash 2747664988U not the expected 3085867303U 161: file test22_2.svg gave hash 1936546203U not the expected 1963311622U 161: Done 161: ----------------- Testing drawing of legends. 161: file testGithub3112_1.svg gave hash 3309789269U not the expected 75452578U 161: file testGithub3112_2.svg gave hash 1712616944U not the expected 2379426157U 162: file testFlexiCanvas.7a.svg gave hash 3558005743U not the expected 514767495U 161: file testGithub3112_3.svg gave hash 1478581410U not the expected 102822156U 162: file testFlexiCanvas.7b.svg gave hash 4108886415U not the expected 4275125955U 162: file testFlexiCanvas.7c.svg gave hash 3558005743U not the expected 514767495U 162: file testFlexiCanvas.7d.svg gave hash 3558005743U not the expected 514767495U 162: file testGithub4764.sz1.svg gave hash 3960519436U not the expected 3611125861U 161: file testGithub3112_4.svg gave hash 3119679941U not the expected 497518508U 161: Done 161: ----------------- Test Github 3305 - change and scale line widths. 161: file testGithub3305_1.svg gave hash 3426768357U not the expected 3688394300U 161: file testGithub3305_2.svg gave hash 193465986U not the expected 3172298658U 161: file testGithub3305_3.svg gave hash 3399005512U not the expected 30441258U 162: file testGithub4764.sz2.svg gave hash 1248344525U not the expected 1936114454U 162: file testGithub4764.sz3.svg gave hash 216601514U not the expected 2712214121U 161: file testGithub3305_1.png gave hash 1516908793U not the expected 3303791649U 162: file testGithub4764.sz1.png gave hash 60244413U not the expected 2179222277U 162: file testGithub4764.sz2.png gave hash 811878551U not the expected 444262090U 161: file testGithub3305_2.png gave hash 4238325905U not the expected 4003267433U 161: file testGithub3305_3.png gave hash 1266082498U not the expected 273338209U 161: file testGithub3305_4.png gave hash 2758251182U not the expected 3842605920U 161: file testGithub3305_4.svg gave hash 1096665289U not the expected 300865579U 162: file testGithub4764.sz3.png gave hash 3943283520U not the expected 3567162200U 162: file testDrawArc1.svg gave hash 2570257638U not the expected 3279637525U 162: file testMetalWedges.svg gave hash 1866142125U not the expected 2896721486U 162: file testVariableLegend_1.svg gave hash 1208675629U not the expected 1817838365U 162: file testVariableLegend_2.svg gave hash 799897710U not the expected 1038247753U 162: file testVariableLegend_3.svg gave hash 2599269417U not the expected 2073034956U 161: file testGithub3305_5.png gave hash 284833991U not the expected 151279576U 162: file testGithub_5061.svg gave hash 1693817644U not the expected 2050932431U 161: file testGithub3305_5.svg gave hash 2864659968U not the expected 1335449325U 162: file testGithub_5269_1.svg gave hash 1215253662U not the expected 4160868253U 162: file testGithub_5269_2.svg gave hash 3106933409U not the expected 488926221U 161: file testGithub3305_6.png gave hash 906926625U not the expected 613418460U 161: file testGithub3305_6.svg gave hash 2849474065U not the expected 4242832627U 162: file test_classes_wavy_bonds.svg gave hash 717756861U not the expected 1694809514U 162: file github5383_1.svg gave hash 3371803390U not the expected 1815941817U 161: file testGithub3305_7.png gave hash 3156471943U not the expected 2835747678U 161: file testGithub3305_7.svg gave hash 4251853036U not the expected 1080046861U 161: Done 161: ----------------- Test Github 3391 - maxFontSize interacting badly with DrawMolecules. 162: file github5383_2.svg gave hash 1193694137U not the expected 0U 161: file testGithub3391_2.svg gave hash 1318798309U not the expected 1941002529U 161: file testGithub3391_3.svg gave hash 783539193U not the expected 2929587661U 161: file testGithub3391_4.svg gave hash 86190467U not the expected 3877564580U 161: Done 161: ----------------- Test Github 4156 - bad scale for radicals in grid 162: file github5383_1.png gave hash 2596689108U not the expected 2893520928U 162: file github5156_1.svg gave hash 369772438U not the expected 2145907703U 161: file testGithub4156_1.svg gave hash 19990580U not the expected 3897707793U 162: file github5156_2.svg gave hash 3891486909U not the expected 4184795863U 161: file testGithub4156_2.svg gave hash 2685997745U not the expected 2067399849U 161: Done 161: ----------------- Test JSON atomColourPalette 162: file acs1996_1.svg gave hash 216498414U not the expected 1111630317U 161: file test23_1.svg gave hash 724753536U not the expected 244577595U 161: Done 161: ----------------- Test draw aromatic OR queries 162: file acs1996_1.png gave hash 3846637818U not the expected 2329725800U 161: Done 161: ----------------- Test AND queries 161: Done 162: file acs1996_2.svg gave hash 3690302210U not the expected 908745273U 162: file acs1996_2.png gave hash 636902962U not the expected 2996350718U 159/243 Test #161: moldraw2DTest1 ......................... Passed 4.29 sec test 163 Start 163: moldraw2DRxnTest1 163: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DRxnTest1 163: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D 163: Test timeout computed to be: 1500 162: file acs1996_3.svg gave hash 2134212631U not the expected 879041204U 162: file acs1996_4.svg gave hash 1360276338U not the expected 1550424006U 162: file acs1996_5.svg gave hash 2027066644U not the expected 3624853279U 162: file acs1996_6.svg gave hash 2198014585U not the expected 3810124161U 162: file acs1996_7.svg gave hash 141629659U not the expected 1113821459U 162: file acs1996_8.svg gave hash 2798315780U not the expected 4110469272U 162: file acs1996_9.svg gave hash 638739745U not the expected 231896677U 162: file acs1996_10.svg gave hash 1008047306U not the expected 2229333301U 162: file acs1996_11.svg gave hash 2107122283U not the expected 4107969968U 162: [20:40:49] 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. 162: file acs1996_12.svg gave hash 1695632460U not the expected 2930884583U 162: file test_unspec_stereo.svg gave hash 738766093U not the expected 3923423666U 162: file light_blue_h_no_label_1.svg gave hash 4062235881U not the expected 1615074554U 162: file bond_highlights_1.svg gave hash 658102882U not the expected 3461339568U 163: ----------------- Test 1 162: file bond_highlights_2.svg gave hash 3764645182U not the expected 4196744632U 162: file bond_highlights_3.svg gave hash 3867013292U not the expected 1492806612U 162: file bond_highlights_4.svg gave hash 3867013292U not the expected 1492806612U 162: file bond_highlights_5.svg gave hash 3468095694U not the expected 1018090699U 162: file bond_highlights_6.svg gave hash 2798034336U not the expected 2808634572U 162: file bond_highlights_7.svg gave hash 2718345351U not the expected 2160801877U 162: file bond_highlights_8.svg gave hash 583556865U not the expected 3119784980U 162: file bond_highlights_9.svg gave hash 3952673208U not the expected 3999278931U 162: file testGithub5486_1.svg gave hash 1690505493U not the expected 3146085634U 162: file testGithub5511_1.svg gave hash 3804872941U not the expected 3975118836U 162: file testGithub5511_2.svg gave hash 1462033913U not the expected 1730094503U 162: file test_github_5534.svg gave hash 2321188208U not the expected 4139208597U 162: file test_github5704_1.svg gave hash 2750231117U not the expected 1676917819U 162: file test_github5704_2.svg gave hash 2842843814U not the expected 2959183882U 162: file test_github5704_3.svg gave hash 3877554301U not the expected 1303839406U 162: file test_github5704_4.svg gave hash 1994163028U not the expected 578468407U 163: file rxn_test1_1.png gave hash 4020643666U not the expected 801892091U 162: file test_github5767.svg gave hash 3276045309U not the expected 3943519724U 162: file test_github5947.svg gave hash 2759717842U not the expected 3122633523U 163: file rxn_test1_1.svg gave hash 2895800765U not the expected 4280849065U 162: file test_github5943.svg gave hash 2101435859U not the expected 1113511714U 162: file test_github5949.svg gave hash 3224019254U not the expected 420848566U 162: file test_github5974.svg gave hash 1343954295U not the expected 1522014196U 162: file test_github5963.svg gave hash 3298068568U not the expected 941197725U 163: file rxn_test1_2.png gave hash 1404595713U not the expected 507435337U 163: file rxn_test1_2.svg gave hash 2007816931U not the expected 2640646320U 162: file test_github6025.svg gave hash 4133517553U not the expected 2316385019U 163: file rxn_test1_3.png gave hash 482053907U not the expected 1590809137U 162: file test_github6027_1.svg gave hash 3135827679U not the expected 1504848694U 163: file rxn_test1_3.svg gave hash 2341270304U not the expected 2781928588U 162: file test_github6027_2.svg gave hash 3945179782U not the expected 765638922U 162: file test_github6041b.svg gave hash 491337038U not the expected 444537337U 163: file rxn_test1_4.png gave hash 2222627099U not the expected 1766700542U 162: file test_complex_query_atoms_1.svg gave hash 1858963124U not the expected 1058348348U 162: file test_complex_query_atoms_2.svg gave hash 1035480271U not the expected 3820627663U 162: file test_complex_query_atoms_3.svg gave hash 1686043631U not the expected 2574610745U 162: file test_complex_query_atoms_4.svg gave hash 1686043631U not the expected 2574610745U 162: file test_complex_query_atoms_5.svg gave hash 2203803203U not the expected 2239402605U 163: file rxn_test1_4.svg gave hash 1951052784U not the expected 437863065U 162: file test_complex_query_atoms_6.svg gave hash 3698041037U not the expected 2784917732U 162: file test_complex_query_atoms_7.svg gave hash 1245832599U not the expected 4016570948U 162: file test_complex_query_atoms_8.svg gave hash 1294989648U not the expected 1215989604U 162: file test_complex_query_atoms_9.svg gave hash 1115198970U not the expected 774489308U 162: file test_complex_query_atoms_10.svg gave hash 2517251618U not the expected 1888858967U 162: file test_complex_query_atoms_11.svg gave hash 3242318807U not the expected 2202417832U 162: file test_complex_query_atoms_12.svg gave hash 1172019267U not the expected 4094464645U 162: file test_complex_query_atoms_13.svg gave hash 1243902839U not the expected 2082462146U 162: file test_complex_query_atoms_14.svg gave hash 144421840U not the expected 3306293765U 162: file test_complex_query_atoms_15.svg gave hash 350162044U not the expected 422354297U 162: file test_complex_query_atoms_16.svg gave hash 2056433870U not the expected 1559600050U 162: file test_github6112.svg gave hash 786537593U not the expected 3278777629U 163: file rxn_test1_5.png gave hash 1839474947U not the expected 2552100594U 163: file rxn_test1_5.svg gave hash 2952130468U not the expected 3590497359U 162: file test_github6160_1.svg gave hash 2373441701U not the expected 1248002094U 162: file test_github6160_2.svg gave hash 780313662U not the expected 3845316354U 162: file test_github6160_3.svg gave hash 2495826902U not the expected 332436229U 162: file test_getMolSize.svg gave hash 738629656U not the expected 894431558U 163: file rxn_test1_6.png gave hash 770525514U not the expected 3791582903U 162: file test_github6200_1.svg gave hash 3652083807U not the expected 1975293465U 163: file rxn_test1_6.svg gave hash 1245887687U not the expected 3289415410U 162: file test_github6200_2.svg gave hash 1251662961U not the expected 2658818798U 162: file test_queryColour_1.svg gave hash 612698405U not the expected 778322651U 162: file test_queryColour_2.svg gave hash 4016400312U not the expected 45913095U 162: file github6336_1.png gave hash 656214421U not the expected 2958833204U 162: file github6336_1.svg gave hash 1390783959U not the expected 612606818U 162: file github6416.svg gave hash 204958662U not the expected 3814405016U 162: file test_github6397_1.svg gave hash 641826916U not the expected 4203615821U 162: file test_github6397_2.svg gave hash 3671116844U not the expected 2405824082U 162: file test_github6397_3.svg gave hash 4272638606U not the expected 759740391U 163: file rxn_test1_7.png gave hash 2288291866U not the expected 1461397406U 163: file rxn_test1_7.svg gave hash 3818263825U not the expected 1831465890U 163: Done 163: ----------------- Test 2: some examples that caused problems in testing 162: file test_github6397_4.svg gave hash 1388380802U not the expected 3123896712U 162: file test_github6397_5.svg gave hash 3466872743U not the expected 148587580U 162: file test_github6400_1.svg gave hash 3669796685U not the expected 2792561051U 162: file github6504_1.svg gave hash 3899211832U not the expected 3649936662U 162: file github6504_2.svg gave hash 3024468659U not the expected 106020287U 163: file rxn_test2_1.png gave hash 381540309U not the expected 3551633840U 162: file github6569_1.svg gave hash 1904338201U not the expected 1698514747U 162: file github6569_2.svg gave hash 3753962909U not the expected 3269796969U 163: file rxn_test2_1.svg gave hash 2863536167U not the expected 3702350010U 163: 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 162: file lasso_highlights_1.svg gave hash 2758820347U not the expected 3709434534U 163: file rxn_test2_2_1.png gave hash 106320165U not the expected 1268122583U 162: file lasso_highlights_2.svg gave hash 3793930795U not the expected 757121560U 163: file rxn_test2_2_1.svg gave hash 3853350160U not the expected 3044844617U 163: 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 162: file lasso_highlights_3.svg gave hash 909338570U not the expected 556406365U 163: file rxn_test2_2_2.png gave hash 1290392038U not the expected 82821108U 163: file rxn_test2_2_2.svg gave hash 72786277U not the expected 269990608U 163: 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 163: 2 C3)c4cccc(c4Cl)Cl CCc1nc(c(n1c2ccccc2)C)C(=O)NCCN3CCN(CC3)c4cccc(c4Cl)Cl 163: 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 162: file lasso_highlights_4.svg gave hash 1169229929U not the expected 4148844874U 162: file lasso_highlights_5.svg gave hash 595568267U not the expected 3920196793U 163: file rxn_test2_2_3.png gave hash 203175959U not the expected 3828365604U 163: file rxn_test2_2_3.svg gave hash 1995182177U not the expected 2459428150U 163: 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 162: file lasso_highlights_6.svg gave hash 4057458673U not the expected 2113147733U 163: file rxn_test2_2_4.png gave hash 1096668109U not the expected 1230108677U 163: file rxn_test2_2_4.svg gave hash 573062586U not the expected 2528579930U 163: Done 163: ----------------- Test 3: test reactant highlighting 162: file lasso_highlights_7.svg gave hash 1759335409U not the expected 514868036U 162: file lasso_highlights_8.svg gave hash 2072576322U not the expected 3231367552U 162: file testGithub6685_1.svg gave hash 2360028336U not the expected 1012747673U 162: file testGithub6685_2.svg gave hash 1967489890U not the expected 4003431099U 162: file testGithub6685_3.svg gave hash 2315324286U not the expected 3019254647U 163: file rxn_test3_1.png gave hash 4112529299U not the expected 4189980366U 162: file testGithub6685_4.svg gave hash 1348301909U not the expected 1239628830U 163: file rxn_test3_1.svg gave hash 3362884215U not the expected 2912956802U 163: Done 163: ----------------- Test 4: some examples from SMARTS in testing 163: draw! 162: file bad_lasso_1.svg gave hash 2208691179U not the expected 726527516U 162: file AtropCanon1.svg gave hash 1130558009U not the expected 1371378369U 162: file AtropManyChiralsEnhanced.svg gave hash 2779455770U not the expected 2256768013U 163: file rxn_test4_1.png gave hash 1800494905U not the expected 2745201873U 162: file testGithub6968.svg gave hash 2416693956U not the expected 577496246U 163: file rxn_test4_1.svg gave hash 2517063300U not the expected 1758099294U 163: done 163: file rxn_test4_2.png gave hash 168316524U not the expected 3094925886U 163: file rxn_test4_2.svg gave hash 477046251U not the expected 3493436271U 163: Done 160/243 Test #163: moldraw2DRxnTest1 ...................... Passed 0.25 sec test 164 Start 164: pyMolDraw2D 164: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Wrap/testMolDraw2D.py" 164: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap 164: Test timeout computed to be: 1500 162: file testGithub7036_2.svg gave hash 2093741698U not the expected 2411796331U 162: file testGithub7036_1.svg gave hash 1700645568U not the expected 303621762U 162: file testWedgeNonSingleBonds-1.svg gave hash 1476167396U not the expected 2116685919U 162: file testWedgeNonSingleBonds-2.svg gave hash 465473374U not the expected 1174395532U 162: file testWedgeNonSingleBonds-3.svg gave hash 2761716211U not the expected 2542970771U 162: file testWedgeNonSingleBonds-4.svg gave hash 1744898749U not the expected 700876833U 162: file testWedgeNonSingleBonds-5.svg gave hash 725983439U not the expected 2012191155U 162: file testWedgeNonSingleBonds-6.svg gave hash 478779300U not the expected 2517061935U 162: file testWedgeNonSingleBonds-7.svg gave hash 3160204290U not the expected 157069219U 162: file testWedgeNonSingleBonds-8.svg gave hash 1462975976U not the expected 3431784338U 162: file testWedgingShouldBeOnSingleBond.svg gave hash 354676681U not the expected 1002741488U 162: file testDuplicateEnhancedStereoLabelsAddAnnotationFalse.svg gave hash 596604646U not the expected 2980189527U 162: file testDuplicateEnhancedStereoLabelsAddAnnotationTrue.svg gave hash 596604646U not the expected 1462263453U 162: file testComplexQueryAtomMap.svg gave hash 1780085415U not the expected 722421835U 162: file testHighlightHeteroAtoms_1.svg gave hash 1075019271U not the expected 1769258632U 162: file testHighlightHeteroAtoms_2.svg gave hash 1842539731U not the expected 893937335U 162: file testGithub_7739_1.svg gave hash 2522396274U not the expected 2615562225U 162: file testGithub_7739_2.svg gave hash 1109975419U not the expected 2225049332U 162: file testGithub_7739_3.svg gave hash 1557300042U not the expected 1037942338U 162: file testGithub_7739_4.svg gave hash 3108591679U not the expected 3549083171U 162: file testGithub_7739_5.svg gave hash 3748355106U not the expected 1114216032U 162: file testAtomAbbreviationsClash.svg gave hash 222225321U not the expected 1847939197U 162: file testBlackAtomsUnderHighlight.svg gave hash 1437801379U not the expected 3916069581U 162: file testSmallReactionCanvas.svg gave hash 1550481432U not the expected 2238356155U 162: file testReactionProductSmoothCorners.svg gave hash 2404050427U not the expected 882352670U 162: file testOptionalAtomListBrackets_1.svg gave hash 3829750483U not the expected 4239908626U 162: file testOptionalAtomListBrackets_2.svg gave hash 562987240U not the expected 3881772214U 162: file testOptionalAtomListBrackets_3.svg gave hash 3781855073U not the expected 2945415850U 162: file testReactionPanels.svg gave hash 2401329499U not the expected 1616500155U 162: file testComponentPadding_1.svg gave hash 86889591U not the expected 2488754565U 162: file testComponentPadding_2.svg gave hash 3183164058U not the expected 2544322406U 162: file testAtomAndBondLabels_1.svg gave hash 3854792861U not the expected 288825710U 162: file testAtomAndBondLabels_2.svg gave hash 4131152872U not the expected 3501435082U 162: file testAtomAndBondLabels_3.svg gave hash 934726898U not the expected 3056536314U 162: file testAtomAndBondLabels_4.svg gave hash 1457363143U not the expected 229616498U 162: file testStandardColoursHighlightedAtoms_1.svg gave hash 4021373646U not the expected 4265528904U 162: file testStandardColoursHighlightedAtoms_2.svg gave hash 2006999042U not the expected 2285000572U 162: file testArrowheads.svg gave hash 177824424U not the expected 3318006834U 162: file testOffsetHighlightedMols.svg gave hash 1374346153U not the expected 3147614756U 162: =============================================================================== 162: All tests passed (6874 assertions in 120 test cases) 162: 161/243 Test #162: moldraw2DTestCatch ..................... Passed 1.93 sec test 165 Start 165: testFMCS 165: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/testFMCS 165: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS 165: Test timeout computed to be: 1500 164: ...[20:40:49] Font file /build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolDraw2D/Amadeus.ttf not found. 164: [20:40:49] Falling back to original font file /build/reproducible-path/rdkit-202503.6/Data/Fonts/Telex-Regular.ttf. 164: ..........[20:40:49] 164: 164: **** 164: Pre-condition Violation 164: molecule must not be None 164: Violation occurred on line 432 in file ./Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp 164: Failed Expression: m 164: ---------- 164: Stacktrace: 164: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 164: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 164: 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 164: 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 164: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 164: 5# 0x0000FFFF7F952680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 164: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 164: 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 164: 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 164: 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 164: 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 164: 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 164: 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 164: 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 164: 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 164: 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 164: 16# 0x0000FFFF7EF44220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 164: 17# 0x0000FFFF7EF441BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 164: 18# 0x0000FFFF7EF44158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 164: 19# 0x0000FFFF7EF440E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 164: 20# 0x0000FFFF7EF44084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 164: 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 164: 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 164: 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 164: 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 164: 25# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 164: 26# 0x0000FFFF7F94F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 164: 27# _PyObject_MakeTpCall in /usr/bin/python3 164: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 164: 29# 0x000000000053D490 in /usr/bin/python3 164: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 164: 31# 0x0000000000626920 in /usr/bin/python3 164: 32# 0x00000000005AA5E4 in /usr/bin/python3 164: 33# _PyObject_MakeTpCall in /usr/bin/python3 164: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 164: 35# 0x000000000053D490 in /usr/bin/python3 164: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 164: 37# 0x0000000000626920 in /usr/bin/python3 164: 38# 0x00000000005AA5E4 in /usr/bin/python3 164: 39# _PyObject_MakeTpCall in /usr/bin/python3 164: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 164: 41# 0x000000000053D490 in /usr/bin/python3 164: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 164: 43# 0x0000000000626920 in /usr/bin/python3 164: 44# 0x00000000005AA5E4 in /usr/bin/python3 164: 45# _PyObject_MakeTpCall in /usr/bin/python3 164: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 164: 47# 0x000000000050B134 in /usr/bin/python3 164: 48# _PyObject_MakeTpCall in /usr/bin/python3 164: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 164: 50# PyEval_EvalCode in /usr/bin/python3 164: 51# 0x000000000064AE1C in /usr/bin/python3 164: 52# 0x0000000000646A70 in /usr/bin/python3 164: 53# 0x000000000066A1B0 in /usr/bin/python3 164: 54# 0x0000000000669A54 in /usr/bin/python3 164: 55# 0x00000000006697EC in /usr/bin/python3 164: 56# Py_RunMain in /usr/bin/python3 164: 57# Py_BytesMain in /usr/bin/python3 164: 58# 0x0000FFFF8139229C in /lib/aarch64-linux-gnu/libc.so.6 164: 59# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 164: 60# _start in /usr/bin/python3 164: ---------- 164: **** 164: 164: ........................ 164: ---------------------------------------------------------------------- 164: Ran 37 tests in 0.124s 164: 164: OK 164: json lasso 162/243 Test #164: pyMolDraw2D ............................ Passed 0.36 sec test 166 Start 166: pyFMCS 166: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/FMCS/Wrap/testFMCS.py" 166: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap 166: Test timeout computed to be: 1500 165: MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds 165: Time elapsed 0.000 seconds 165: 165: test32() 165: 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 165: Time elapsed 0.034 seconds 165: 165: test190() 165: 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 165: Time elapsed 0.005 seconds 165: 165: test3() 165: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6]-[#6](=[#8])-[#7]-[#6]-[#6]-[#6]-[#6] 14 atoms, 14 bonds 165: Time elapsed 0.007 seconds 165: 165: testSimpleFast() 165: 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 165: Time elapsed 0.053 seconds 165: 165: testSimple() 165: MCS: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 165: Time elapsed 0.048 seconds 165: MCS MatchFusedRings: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 165: Time elapsed 0.062 seconds 165: MCS MatchFusedRingsStrict: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 165: Time elapsed 0.060 seconds 165: 165: testSegFault() 165: MCS: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds 165: Time elapsed 0.009 seconds 165: MCS MatchFusedRings: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds 165: Time elapsed 0.013 seconds 165: 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 165: Time elapsed 0.011 seconds 165: 165: testThreshold() 165: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 165: Time elapsed 0.000 seconds 165: 165: testRing1() 165: 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 165: Time elapsed 0.177 seconds 165: 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 165: Time elapsed 0.164 seconds 165: 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 165: Time elapsed 0.185 seconds 165: 165: testAtomCompareIsotopes() 165: MCS: [0*]-[0*]-[13*] 3 atoms, 2 bonds 165: Time elapsed 0.000 seconds 165: 165: testAtomCompareAnyAtom() 165: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds 165: Time elapsed 0.000 seconds 165: 165: testAtomCompareAnyAtom() 165: MCS: [#6]1-,:[#6]-,:[#6]-,:[#6]-,:[#6]-,:[#6]-,:1=,-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds 165: Time elapsed 0.000 seconds 165: 165: testAtomCompareAnyAtom() 165: MCS: [#1]-[#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#8] 8 atoms, 8 bonds 165: Time elapsed 0.000 seconds 165: 165: testAtomCompareAnyAtom() 165: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#8] 7 atoms, 7 bonds 165: Time elapsed 0.000 seconds 165: 165: testJnk1LigandsDistance() 165: 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 165: Time elapsed 0.005 seconds 165: 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 165: Time elapsed 0.001 seconds 165: 165: test18() 165: 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]1 165: 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 165: Time elapsed 0.004 seconds 165: 165: test504() 165: 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]1 165: 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 165: Time elapsed 0.045 seconds 165: MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds 165: Time elapsed 0.001 seconds 165: 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 165: Time elapsed 0.013 seconds 165: Query Cc1c(F)c(N2CCNC(C)C2)cc2c1c(=O)c(C(=O)O)cn2C1CC1 26(26) atoms, 29(28) bonds 165: 1 Seeds:1 MCS 25 atoms, 28 bonds for 0.0008 seconds. bond[0]=6 165: STATISTICS: 165: Total Growing Steps = 1, MCS found on 1 step, for 0.0008 seconds 165: Initial Seeds = 1, Mismatched 0 165: Inspected Seeds = 2 165: Rejected by BestSize = 0 165: IndividualBondExcluded = 0 165: MatchCheck Seeds = 2 165: MatchCalls = 2 165: MatchFound = 1 165: fastMatchCalls = 1 165: fastMatchFound = 0 165: slowMatchCalls = 2 165: slowMatchFound = 1 165: DupCacheFound = 0 0 matched, 0 mismatched 165: HashCache size = 1 keys 165: HashCache size = 1 entries 165: FindHashInCache = 2 165: HashFoundInCache= 0 165: ExactMatchCalls = 0 165: ExactMatchFound = 0 165: Time elapsed 0.001 seconds 165: query=OCCl SubstructMatch(useChirality=false) res =1 size=3 165: query=OCCl SubstructMatch(useChirality=true ) res =1 size=3 165: test target = O[C@H](F)CCl query = C(F)C useChirality = 0 165: res sub = 1 size=3 165: MCS: [#6](-[#9])-[#6] 3 atoms, 2 bonds 165: test target = O[C@H](F)CCl query = C(F)C useChirality = 1 165: res sub = 1 size=3 165: MCS: [#6](-[#9])-[#6] 3 atoms, 2 bonds 165: test target = CC[C@H](F)Cl query = CCC useChirality = 0 165: res sub = 1 size=3 165: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 165: test target = CC[C@H](F)Cl query = CCC useChirality = 1 165: res sub = 1 size=3 165: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 165: test target = CCC(F)Cl query = CC useChirality = 0 165: res sub = 1 size=2 165: MCS: [#6]-[#6] 2 atoms, 1 bonds 165: test target = CCC(F)Cl query = CC useChirality = 1 165: res sub = 1 size=2 165: MCS: [#6]-[#6] 2 atoms, 1 bonds 165: test target = C[C@H](F)CCl query = C[C@H](F)C useChirality = 0 165: res sub = 1 size=4 165: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = C[C@H](F)CCl query = C[C@H](F)C useChirality = 1 165: res sub = 1 size=4 165: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = C[C@H](F)CCl query = C[C@@H](F)C useChirality = 0 165: res sub = 1 size=4 165: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = C[C@H](F)CCl query = C[C@@H](F)C useChirality = 1 165: res sub = 1 size=4 165: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = O[C@H](F)CCl query = CC(F)C useChirality = 0 165: res sub = 0 size=0 165: MCS: [#6]-[#6]-[#9] 3 atoms, 2 bonds 165: test target = O[C@H](F)CCl query = CC(F)C useChirality = 1 165: res sub = 0 size=0 165: MCS: [#6]-[#6]-[#9] 3 atoms, 2 bonds 165: test target = O[C@H](F)CCl query = OC(F)C useChirality = 0 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = O[C@H](F)CCl query = OC(F)C useChirality = 1 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = O[C@H](F)CCl query = O[C@H](F)C useChirality = 0 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = O[C@H](F)CCl query = O[C@H](F)C useChirality = 1 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = O[C@H](F)CCl query = O[C@@H](F)C useChirality = 0 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = O[C@H](F)CCl query = O[C@@H](F)C useChirality = 1 165: res sub = 0 size=0 165: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 165: test target = OC(F)CCl query = OC(F)C useChirality = 0 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = OC(F)CCl query = OC(F)C useChirality = 1 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = OC(F)CCl query = O[C@H](F)C useChirality = 0 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = OC(F)CCl query = O[C@H](F)C useChirality = 1 165: res sub = 0 size=0 165: MCS: [#9] 1 atoms, 0 bonds 165: test target = OC(F)CCl query = O[C@@H](F)C useChirality = 0 165: res sub = 1 size=4 165: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 165: test target = OC(F)CCl query = O[C@@H](F)C useChirality = 1 165: res sub = 0 size=0 165: MCS: [#9] 1 atoms, 0 bonds 165: test target = O[C@H](F)CCl query = O[C@H]C useChirality = 0 165: res sub = 1 size=3 165: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 165: test target = O[C@H](F)CCl query = O[C@H]C useChirality = 1 165: res sub = 1 size=3 165: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 165: test target = O[C@H](F)CCl query = O[C@@H]C useChirality = 0 165: res sub = 1 size=3 165: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 165: test target = O[C@H](F)CCl query = O[C@@H]C useChirality = 1 165: res sub = 1 size=3 165: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 165: 165: 0. <<<<<<<<< actual MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds >>>>>>> 165: test target = CC[C@H](F)Cl query = CC[C@H] useChirality = 0 165: res sub = 1 size=3 165: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 165: test target = CC[C@H](F)Cl query = CC[C@H] useChirality = 1 165: res sub = 1 size=3 165: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 165: done 148: [20:40:50] done 165: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: ........................................[20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: .[20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: .[20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: .[20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: [20:40:51] The provided InitialSeed is not an MCS and will be ignored 166: ................. 166: ---------------------------------------------------------------------- 166: Ran 60 tests in 1.731s 166: 166: OK 163/243 Test #166: pyFMCS ................................. Passed 1.94 sec test 167 Start 167: FMCStest 167: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/FMCStest 167: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test 167: Test timeout computed to be: 1500 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_15113.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_16613.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_30745.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_30861.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_31495.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_34869.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_36158.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_36559.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_37434.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_39147.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_43754.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_44011.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_44158.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_48076.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_48961.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_49648.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_49703.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_51128.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_51343.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_51842.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_54554.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_100_55749.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_17256.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_20244.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_20245.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_30149.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_30499.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_36186.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_39262.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_43966.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_45279.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_48029.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_49064.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_49801.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_50681.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_54039.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58265.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58358.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58866.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10188_60810.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_21358.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_21597.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_30111.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_30349.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_31746.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_31822.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_35220.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_37603.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_37964.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_39508.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_42164.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_42577.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_44072.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_45522.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46700.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46719.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46744.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_48517.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_49087.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_50034.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_51475.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_53483.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_53506.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_54598.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_55614.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_55737.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57090.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57705.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57785.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_58463.txt 167: 167: testChEMBfopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: L_Txt() chembl_II_sets/Target_no_10193_58700.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_61003.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10193_61349.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10260_38526.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10260_50778.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10260_52179.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10260_54285.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_30224.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_31222.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37349.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37369.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37465.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37541.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_38371.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_44314.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_44578.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_45765.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_46281.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_47928.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_50624.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51341.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51662.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51767.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53081.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53396.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53407.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_58823.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_59190.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_60672.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10280_61176.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10434_20905.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30074.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30175.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30423.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10434_31555.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10434_34878.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10434_35926.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10434_42168.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_20859.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_30060.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_30061.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_30606.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_30866.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_31249.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_34921.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_35188.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_36636.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_37466.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_39202.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_43952.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_49345.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_49591.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_49854.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_51416.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_53537.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_58879.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_60679.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_107_61269.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_20600.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_20859.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_30060.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_30606.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_30866.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_31558.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_35188.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_37466.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_43875.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_48911.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_49591.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_49854.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: no_108_57887.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_60679.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_108_6857.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_15478.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_20853.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30840.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30862.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30918.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30994.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31014.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31508.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31623.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35003.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35004.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35281.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35957.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_36520.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_36641.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_38586.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_44431.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_45093.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_51302.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_5247.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_52937.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_57198.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_5739.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_10980_6535.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_20205.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_20986.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_30091.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_34698.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_34705.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37038.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37272.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37447.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_38909.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_38953.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_39472.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_45825.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_47179.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_49028.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_49860.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_51984.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_53395.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_53826.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_54121.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_54530.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_55738.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_57725.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11140_58590.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11365_20432.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11365_30331.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11365_37956.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11365_48114.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11365_58566.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_34731.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_34818.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37318.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37339.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37564.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_39504.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_39561.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_46082.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_46089.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_47349.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_47757.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_51593.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_54754.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_58262.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11489_58958.txt 167: 167: testChEMBL_Txt(fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: ) chembl_II_sets/Target_no_114_16827.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_20503.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_20724.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_30254.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_30321.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_30572.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_31116.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_31281.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_31443.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_34747.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_34920.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_35040.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_36623.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_37136.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_37208.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_38298.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_38554.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_39088.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_39543.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_44049.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_44562.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_45180.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_45867.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_46087.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_46829.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_47546.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_48395.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_50461.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_50765.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_51669.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_52381.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_57231.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_114_58246.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_30999.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_31021.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_31650.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_35011.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_37014.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_44598.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_48446.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50614.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50615.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50618.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11534_51950.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11575_31616.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11575_38381.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11575_45757.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11575_46816.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11575_50701.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11575_54049.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11575_57890.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11575_61045.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11631_30194.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11631_31421.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11631_35538.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11631_55727.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11631_60676.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11631_61130.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_11631_6444.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_15623.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_20096.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_21591.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_30184.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_30380.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_30745.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_30861.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_31619.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_34869.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_35284.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_36158.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_36915.txt 167: 167: testChEMBL_Txfopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: t() chembl_II_sets/Target_no_121_37434.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_37541.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_37677.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_38837.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_39530.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_43793.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_44158.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_44164.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_44579.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_44593.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_44692.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_44914.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_45878.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_48050.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_48706.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_48944.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_48961.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_49880.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_50055.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_50512.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_51064.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_53537.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_55749.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_58879.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_121_6876.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12209_44664.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12209_46451.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12209_50640.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12209_56102.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12209_58015.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12209_59089.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12209_59092.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12209_61340.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12252_31458.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12252_38481.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12252_42104.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12252_49475.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12252_49933.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12252_50558.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_126_37249.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_126_39117.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_126_48227.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_126_48229.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_126_53969.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_126_54262.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_126_55353.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_126_61212.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20250.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20506.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20626.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20689.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_21358.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_30158.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_30349.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_34843.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_35220.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_36318.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_36800.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_39349.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_45385.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_45676.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_46700.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_46719.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_48517.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_52690.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_53483.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_55435.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_56102.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_58015.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_12952_58375.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_1295fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: 2_58700.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_16724.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_2710.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_30128.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_31250.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_35519.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_36905.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_46788.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_4737.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_55736.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_13001_57473.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_16146.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_30313.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_30539.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_30653.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_30988.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_31179.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_31339.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_3525.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_36886.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_37020.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_38128.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_43952.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_45210.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_45899.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_47889.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_51800.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_53158.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_5330.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_55648.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_56096.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_57287.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_57399.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_57606.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_58470.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_130_60894.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_15010.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_20304.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_20542.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_20788.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_21358.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_30349.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_31103.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_31764.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_31822.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_35220.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_37964.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_42164.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_44072.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_45522.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_46719.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_46744.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_48416.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_49740.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_50034.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_50640.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_53483.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_53506.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_53814.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_55435.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_56074.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_56107.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_57090.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_57705.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_57785.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_57861.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_58583.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_59089.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_15_59092.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_20600.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_30764.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_34876.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_37427.tfopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: xt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_38266.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_45283.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_46990.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_47123.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_47900.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_48050.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_48062.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_48076.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_50718.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_50972.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_51372.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_51830.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_53049.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_53505.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_54021.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_54565.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_54570.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_57666.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_57890.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_58072.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_58634.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_58643.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_59080.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_59202.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_59346.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_60379.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_60385.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_165_61098.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_17045_31154.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_17045_35648.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_17045_48914.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_17045_51975.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_17045_52435.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_17045_55790.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_17045_58958.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_17045_61146.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20191.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20562.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20606.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20607.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30003.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30402.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30726.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30924.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31457.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31460.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31600.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31620.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31640.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31782.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31797.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31829.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31856.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34690.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34691.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34694.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_35712.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_37497.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_37539.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48070.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48219.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48824.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48902.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_52867.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_53534.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_54570.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_58727.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_60159.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_19905_60661.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_30037.txt 167: 167: testChEMBL_Txt() chefopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: mbl_II_sets/Target_no_259_34734.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_35365.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_35787.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_36793.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_37845.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_38328.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_39374.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_43936.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_44059.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_44405.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_44424.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_45166.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_46158.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_46425.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_47187.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_48435.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_48817.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_48849.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_48957.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_48965.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_49519.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_49921.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_50392.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_50972.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_52405.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_52442.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_53169.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_54640.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_57207.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_58537.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_58920.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_259_60358.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_25_16077.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_25_34943.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_25_36391.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_25_36574.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_25_52906.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_25_54642.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_16385.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_20333.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_20774.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_35825.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_37637.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_47741.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_48567.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_48841.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_49589.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_50564.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_51201.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_53150.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_55747.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_43_58276.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_20813.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_2331.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_2391.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_30374.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_30512.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_30796.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_31058.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_31450.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_36609.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_36636.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_38266.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_43800.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_47621.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_49433.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_49550.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_49865.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_51005.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_52373.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_53878.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_54554.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_57508.txtfopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_57618.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_59484.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_51_6563.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_61_16845.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_61_37106.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_61_37272.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_61_47947.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_61_50754.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_61_55800.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_61_57380.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_65_35328.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_65_36137.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_65_38826.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_65_44596.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_65_51275.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_65_55671.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_20155.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_30616.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_30653.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_30988.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_31339.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_31527.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_31631.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_36047.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_36568.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_36636.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_37020.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_38128.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_43952.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_45210.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_47889.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_51064.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_51800.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_5330.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_57508.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_58470.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_72_60894.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_20730.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_20753.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_30097.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_30663.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_35365.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_35375.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_35918.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_36010.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_36780.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_36793.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_37845.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_39110.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_39546.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_43936.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_44405.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_44424.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_44683.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_45166.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_46648.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_46986.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_47070.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_47187.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_48435.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_48817.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_49138.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_49460.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_49519.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_49532.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_49829.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_50608.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_54640.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_87_61082.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_90_15727.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_90_20155.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_90_30407.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_90_3525.txt 167: 167: testChEMBfopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: fopen testChEMBL_Txt(): No such file or directory 167: L_Txt() chembl_II_sets/Target_no_93_12377.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_93_1308.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_93_34759.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_93_35447.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_93_42214.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_93_45877.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_93_47082.txt 167: 167: testChEMBL_Txt() chembl_II_sets/Target_no_93_57082.txt 167: 167: testFileSDF_RandomSet(): benchmark/chembl13-10000-random-pairs.sdf 167: ERROR: RDKit could not load input file 167: 167: testFileSDF_RandomSet(): benchmark/chembl13_pairs.smi 167: ERROR: RDKit could not load input file 167: 167: testFileSDF_RandomSet(): benchmark/chembl13_knearest_2.smi 167: ERROR: RDKit could not load input file 167: 167: testFileSDF_RandomSet(): benchmark/chembl13_knearest_10.smi 167: ERROR: RDKit could not load input file 167: 167: testFileSDF_RandomSet(): benchmark/chembl13_knearest_100.smi 167: ERROR: RDKit could not load input file 167: 167: testFileSDF_RandomSet(): benchmark/chembl13_threshold_80.smi 167: ERROR: RDKit could not load input file 167: 167: testFileSDF_RandomSet(): benchmark/chembl13_threshold_90.smi 167: ERROR: RDKit could not load input file 164/243 Test #167: FMCStest ............................... Passed 0.01 sec test 168 Start 168: molHashCatchTest 168: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/molHashCatchTest 168: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash 168: Test timeout computed to be: 1500 168: Randomness seeded to: 835205757 168: =============================================================================== 168: All tests passed (411 assertions in 18 test cases) 168: 165/243 Test #168: molHashCatchTest ....................... Passed 0.09 sec test 169 Start 169: pyMolHash 169: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolHash/Wrap/testMolHash.py" 169: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap 169: Test timeout computed to be: 1500 169: .... 169: ---------------------------------------------------------------------- 169: Ran 4 tests in 0.007s 169: 169: OK 166/243 Test #169: pyMolHash .............................. Passed 0.24 sec test 170 Start 170: testMMPA 170: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/testMMPA 170: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA 170: Test timeout computed to be: 1500 170: 170: TEST mol: Case1 Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1 Case1 170: Time elapsed 0.021964 seconds 170: 1: res= NULL,C[*:1].C[C:7](C(=O)Nc1ccccc1[*:1])[NH+]1CCCC1 170: 1: NOREF. Reference data NOT LISTED in test case. 170: 2: res= c1ccc([*:2])c([*:1])c1,C[*:1].C[C:7](C(=O)N[*:2])[NH+]1CCCC1 170: 2: NOREF. Reference data NOT LISTED in test case. 170: 3: res= O=C(Nc1ccccc1[*:1])[*:2],C[*:1].C[C:7]([NH+]1CCCC1)[*:2] 170: 3: NOREF. Reference data NOT LISTED in test case. 170: 4: res= O=C(Nc1ccccc1[*:1])[C:7]([NH+]1CCCC1)[*:2],C[*:1].C[*:2] 170: 4: NOREF. Reference data NOT LISTED in test case. 170: 5: res= O=C(Nc1ccccc1[*:1])[C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].C[*:2] 170: 5: NOREF. Reference data NOT LISTED in test case. 170: 6: res= C[C:7](C(=O)Nc1ccccc1[*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 170: 6: NOREF. Reference data NOT LISTED in test case. 170: 7: res= NULL,C[C:7](C(=O)N[*:1])[NH+]1CCCC1.Cc1ccccc1[*:1] 170: 7: NOREF. Reference data NOT LISTED in test case. 170: 8: res= O=C(N[*:2])[*:1],C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1[*:2] 170: 8: NOREF. Reference data NOT LISTED in test case. 170: 9: res= O=C(N[*:2])[C:7]([NH+]1CCCC1)[*:1],C[*:1].Cc1ccccc1[*:2] 170: 9: NOREF. Reference data NOT LISTED in test case. 170: 10: res= O=C(N[*:3])[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1].Cc1ccccc1[*:3] 170: 10: NOREF. Reference data NOT LISTED in test case. 170: 11: res= C[C:7](C(=O)N[*:2])[*:1],C1CC[NH+]([*:1])C1.Cc1ccccc1[*:2] 170: 11: NOREF. Reference data NOT LISTED in test case. 170: 12: res= NULL,C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1NC(=O)[*:1] 170: 12: NOREF. Reference data NOT LISTED in test case. 170: 13: res= C1CC[NH+]([C:7]([*:1])[*:2])C1,C[*:1].Cc1ccccc1NC(=O)[*:2] 170: 13: NOREF. Reference data NOT LISTED in test case. 170: 14: res= [*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].Cc1ccccc1NC(=O)[*:2] 170: 14: NOREF. Reference data NOT LISTED in test case. 170: 15: res= C[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.Cc1ccccc1NC(=O)[*:1] 170: 15: NOREF. Reference data NOT LISTED in test case. 170: 16: res= NULL,C[*:1].Cc1ccccc1NC(=O)[C:7]([NH+]1CCCC1)[*:1] 170: 16: NOREF. Reference data NOT LISTED in test case. 170: 17: res= Cc1ccccc1NC(=O)[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 170: 17: NOREF. Reference data NOT LISTED in test case. 170: 18: res= NULL,C1CC[NH+]([*:1])C1.Cc1ccccc1NC(=O)[C:7](C)[*:1] 170: 18: NOREF. Reference data NOT LISTED in test case. 170: 170: --- UNMATCHED Reference RESULTS: --- 170: 1: Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1,Case1,[*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:2].Cc1ccccc1NC(=O)[*:1] 170: ----------------------------------- 170: Time elapsed 0.010900 seconds 170: 170: TEST 1 mol: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-] ZINC21984717 170: 1: NULL, C[*:1].O=C(NCCO)c1c([*:1])n([O-])c2ccccc2[n+]1=O 170: 1: PASSED. matchedRefRes = 4 170: 2: O=[n+]1c([*:2])c([*:1])n([O-])c2ccccc21, C[*:1].O=C(NCCO)[*:2] 170: 2: PASSED. matchedRefRes = 1 170: 3: O=C(N[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].OCC[*:2] 170: 3: PASSED. matchedRefRes = 6 170: 4: O=C(NC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].OC[*:2] 170: 4: PASSED. matchedRefRes = 13 170: 5: O=C(NCC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].O[*:2] 170: 5: PASSED. matchedRefRes = 12 170: 6: NULL, Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O=C(NCCO)[*:1] 170: 6: PASSED. matchedRefRes = 10 170: 7: O=C(N[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 170: 7: NOREF. Reference data NOT LISTED in test case.O=C(N[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 170: 8: O=C(NC[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 170: 8: NOREF. Reference data NOT LISTED in test case.O=C(NC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 170: 9: O=C(NCC[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 170: 9: NOREF. Reference data NOT LISTED in test case.O=C(NCC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 170: 10: NULL, Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 170: 10: PASSED. matchedRefRes = 3 170: 11: C([*:1])[*:2], Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 170: 11: NOREF. Reference data NOT LISTED in test case.C([*:1])[*:2],Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 170: 12: C(C[*:2])[*:1], Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 170: 12: PASSED. matchedRefRes = 8 170: 13: NULL, Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:1] 170: 13: PASSED. matchedRefRes = 9 170: 14: C([*:1])[*:2], Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 170: 14: PASSED. matchedRefRes = 11 170: 15: NULL, Cc1c(C(=O)NCC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:1] 170: 15: PASSED. matchedRefRes = 2 170: 170: --- UNMATCHED Reference RESULTS: --- 170: 5: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,C([*:1])[*:2],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 170: 7: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(N[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:2] 170: 14: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NCC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 170: 15: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 170: ----------------------------------- 170: 170: TEST mol: ZINC21984717 Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-] ZINC21984717 170: Time elapsed 0.002008 seconds 170: 1: res= NULL,C[*:1].O=C(NCCO)c1c([*:1])n([O-])c2ccccc2[n+]1=O 170: 1: PASSED. matchedRefRes = 4 170: 2: res= O=[n+]1c([*:2])c([*:1])n([O-])c2ccccc21,C[*:1].O=C(NCCO)[*:2] 170: 2: PASSED. matchedRefRes = 1 170: 3: res= O=C(N[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].OCC[*:2] 170: 3: PASSED. matchedRefRes = 6 170: 4: res= O=C(NC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].OC[*:2] 170: 4: PASSED. matchedRefRes = 13 170: 5: res= O=C(NCC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].O[*:2] 170: 5: PASSED. matchedRefRes = 12 170: 6: res= NULL,Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O=C(NCCO)[*:1] 170: 6: PASSED. matchedRefRes = 10 170: 7: res= O=C(N[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 170: 7: NOREF. Reference data NOT LISTED in test case. 170: 8: res= O=C(NC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 170: 8: NOREF. Reference data NOT LISTED in test case. 170: 9: res= O=C(NCC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 170: 9: NOREF. Reference data NOT LISTED in test case. 170: 10: res= NULL,Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 170: 10: PASSED. matchedRefRes = 3 170: 11: res= C([*:1])[*:2],Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 170: 11: NOREF. Reference data NOT LISTED in test case. 170: 12: res= C(C[*:2])[*:1],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 170: 12: PASSED. matchedRefRes = 8 170: 13: res= NULL,Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:1] 170: 13: PASSED. matchedRefRes = 9 170: 14: res= C([*:1])[*:2],Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 170: 14: PASSED. matchedRefRes = 11 170: 15: res= NULL,Cc1c(C(=O)NCC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:1] 170: 15: PASSED. matchedRefRes = 2 170: 170: --- UNMATCHED Reference RESULTS: --- 170: 5: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,C([*:1])[*:2],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 170: 7: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(N[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:2] 170: 14: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NCC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 170: 15: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 170: ----------------------------------- 170: 170: TEST mol: Case1-SIMPLE CC(N1CC1)C(=O) Case1-SIMPLE 170: Time elapsed 0.000548 seconds 170: 1: res= NULL,C[*:1].O=CC(N1CC1)[*:1] 170: 1: PASSED. matchedRefRes = 2 170: 2: res= O=CC([*:1])[*:2],C1CN1[*:2].C[*:1] 170: 2: PASSED. matchedRefRes = 3 170: 3: res= C([*:1])([*:2])[*:3],C1CN1[*:3].C[*:1].O=C[*:2] 170: 3: NOREF. Reference data NOT LISTED in test case. 170: 4: res= C1CN1C([*:1])[*:2],C[*:1].O=C[*:2] 170: 4: PASSED. matchedRefRes = 4 170: 5: res= NULL,C1CN1[*:1].CC(C=O)[*:1] 170: 5: PASSED. matchedRefRes = 5 170: 6: res= CC([*:1])[*:2],C1CN1[*:2].O=C[*:1] 170: 6: NOREF. Reference data NOT LISTED in test case. 170: 7: res= NULL,CC(N1CC1)[*:1].O=C[*:1] 170: 7: PASSED. matchedRefRes = 7 170: 170: --- UNMATCHED Reference RESULTS: --- 170: 1: CC(N1CC1)C(=O),Case1-SIMPLE,C([*:1])([*:2])[*:3],C1CN1[*:2].C[*:1].O=C[*:3] 170: 6: CC(N1CC1)C(=O),Case1-SIMPLE,CC([*:1])[*:2],C1CN1[*:1].O=C[*:2] 170: ----------------------------------- 170: 170: TEST mol: Case1 Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1 Case1 170: Time elapsed 0.002188 seconds 170: 1: res= NULL,C[*:1].C[C:7](C(=O)Nc1ccccc1[*:1])[NH+]1CCCC1 170: 1: NOREF. Reference data NOT LISTED in test case. 170: 2: res= c1ccc([*:2])c([*:1])c1,C[*:1].C[C:7](C(=O)N[*:2])[NH+]1CCCC1 170: 2: NOREF. Reference data NOT LISTED in test case. 170: 3: res= O=C(Nc1ccccc1[*:1])[*:2],C[*:1].C[C:7]([NH+]1CCCC1)[*:2] 170: 3: NOREF. Reference data NOT LISTED in test case. 170: 4: res= O=C(Nc1ccccc1[*:1])[C:7]([NH+]1CCCC1)[*:2],C[*:1].C[*:2] 170: 4: NOREF. Reference data NOT LISTED in test case. 170: 5: res= O=C(Nc1ccccc1[*:1])[C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].C[*:2] 170: 5: NOREF. Reference data NOT LISTED in test case. 170: 6: res= C[C:7](C(=O)Nc1ccccc1[*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 170: 6: NOREF. Reference data NOT LISTED in test case. 170: 7: res= NULL,C[C:7](C(=O)N[*:1])[NH+]1CCCC1.Cc1ccccc1[*:1] 170: 7: NOREF. Reference data NOT LISTED in test case. 170: 8: res= O=C(N[*:2])[*:1],C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1[*:2] 170: 8: NOREF. Reference data NOT LISTED in test case. 170: 9: res= O=C(N[*:2])[C:7]([NH+]1CCCC1)[*:1],C[*:1].Cc1ccccc1[*:2] 170: 9: NOREF. Reference data NOT LISTED in test case. 170: 10: res= O=C(N[*:3])[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1].Cc1ccccc1[*:3] 170: 10: NOREF. Reference data NOT LISTED in test case. 170: 11: res= C[C:7](C(=O)N[*:2])[*:1],C1CC[NH+]([*:1])C1.Cc1ccccc1[*:2] 170: 11: NOREF. Reference data NOT LISTED in test case. 170: 12: res= NULL,C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1NC(=O)[*:1] 170: 12: NOREF. Reference data NOT LISTED in test case. 170: 13: res= C1CC[NH+]([C:7]([*:1])[*:2])C1,C[*:1].Cc1ccccc1NC(=O)[*:2] 170: 13: NOREF. Reference data NOT LISTED in test case. 170: 14: res= [*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].Cc1ccccc1NC(=O)[*:2] 170: 14: NOREF. Reference data NOT LISTED in test case. 170: 15: res= C[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.Cc1ccccc1NC(=O)[*:1] 170: 15: NOREF. Reference data NOT LISTED in test case. 170: 16: res= NULL,C[*:1].Cc1ccccc1NC(=O)[C:7]([NH+]1CCCC1)[*:1] 170: 16: NOREF. Reference data NOT LISTED in test case. 170: 17: res= Cc1ccccc1NC(=O)[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 170: 17: NOREF. Reference data NOT LISTED in test case. 170: 18: res= NULL,C1CC[NH+]([*:1])C1.Cc1ccccc1NC(=O)[C:7](C)[*:1] 170: 18: NOREF. Reference data NOT LISTED in test case. 170: 170: --- UNMATCHED Reference RESULTS: --- 170: 1: Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1,Case1,[*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:2].Cc1ccccc1NC(=O)[*:1] 170: ----------------------------------- 170: 170: TEST mol: Case2 O=C(OCc1ccccc1)C(O)c1ccccc1 Case2 170: Time elapsed 0.010529 seconds 170: 1: res= NULL,O=C(O[*:1])C(O)c1ccccc1.c1ccc(C[*:1])cc1 170: 1: NOREF. Reference data NOT LISTED in test case. 170: 2: res= C([*:1])[*:2],O=C(O[*:1])C(O)c1ccccc1.c1ccc([*:2])cc1 170: 2: NOREF. Reference data NOT LISTED in test case. 170: 3: res= O=C(O[*:2])[*:1],OC(c1ccccc1)[*:1].c1ccc(C[*:2])cc1 170: 3: NOREF. Reference data NOT LISTED in test case. 170: 4: res= O=C(O[*:1])C(c1ccccc1)[*:2],O[*:2].c1ccc(C[*:1])cc1 170: 4: NOREF. Reference data NOT LISTED in test case. 170: 5: res= O=C(O[*:1])C([*:2])[*:3],O[*:2].c1ccc(C[*:1])cc1.c1ccc([*:3])cc1 170: 5: NOREF. Reference data NOT LISTED in test case. 170: 6: res= O=C(O[*:1])C(O)[*:2],c1ccc(C[*:1])cc1.c1ccc([*:2])cc1 170: 6: NOREF. Reference data NOT LISTED in test case. 170: 7: res= NULL,O=C(OC[*:1])C(O)c1ccccc1.c1ccc([*:1])cc1 170: 7: NOREF. Reference data NOT LISTED in test case. 170: 8: res= O=C(OC[*:2])[*:1],OC(c1ccccc1)[*:1].c1ccc([*:2])cc1 170: 8: NOREF. Reference data NOT LISTED in test case. 170: 9: res= O=C(OC[*:2])C(c1ccccc1)[*:1],O[*:1].c1ccc([*:2])cc1 170: 9: NOREF. Reference data NOT LISTED in test case. 170: 10: res= O=C(OC[*:2])C([*:1])[*:3],O[*:1].c1ccc([*:2])cc1.c1ccc([*:3])cc1 170: 10: NOREF. Reference data NOT LISTED in test case. 170: 11: res= O=C(OC[*:1])C(O)[*:2],c1ccc([*:1])cc1.c1ccc([*:2])cc1 170: 11: NOREF. Reference data NOT LISTED in test case. 170: 12: res= NULL,O=C(OCc1ccccc1)[*:1].OC(c1ccccc1)[*:1] 170: 12: NOREF. Reference data NOT LISTED in test case. 170: 13: res= c1ccc(C([*:1])[*:2])cc1,O=C(OCc1ccccc1)[*:1].O[*:2] 170: 13: NOREF. Reference data NOT LISTED in test case. 170: 14: res= C([*:1])([*:2])[*:3],O=C(OCc1ccccc1)[*:1].O[*:2].c1ccc([*:3])cc1 170: 14: PASSED. matchedRefRes = 1 170: 15: res= OC([*:1])[*:2],O=C(OCc1ccccc1)[*:1].c1ccc([*:2])cc1 170: 15: NOREF. Reference data NOT LISTED in test case. 170: 16: res= NULL,O=C(OCc1ccccc1)C(c1ccccc1)[*:1].O[*:1] 170: 16: NOREF. Reference data NOT LISTED in test case. 170: 17: res= O=C(OCc1ccccc1)C([*:1])[*:2],O[*:1].c1ccc([*:2])cc1 170: 17: NOREF. Reference data NOT LISTED in test case. 170: 18: res= NULL,O=C(OCc1ccccc1)C(O)[*:1].c1ccc([*:1])cc1 170: 18: NOREF. Reference data NOT LISTED in test case. 170: 170: --- ALL PASSED --- 170: ----------------------------------- 170: 5 TEST CASES FAILED 167/243 Test #170: testMMPA ............................... Passed 0.24 sec test 171 Start 171: pyMMPA 171: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MMPA/Wrap/testMMPA.py" 171: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap 171: Test timeout computed to be: 1500 148: [20:40:50] --------------------------------- 148: [20:40:50] test github issue 256: handling of zero-atom molecules 148: 148: [20:40:50] --------------------------------- 148: [20:40:50] test embedder callback function 148: [20:40:50] --------------------------------- 148: [20:40:50] test multi-threaded multi-conf embedding 148: 148: [20:40:52] --------------------------------- 148: [20:40:52] test github issue 563: Incorrect ring stereochemistry after embedding 148: 148: CNC[C@H]1CC[C@H](C[NH3+])CC1 171: ......... 171: ---------------------------------------------------------------------- 171: Ran 9 tests in 0.784s 171: 171: OK 148: [20:40:53] --------------------------------- 148: [20:40:53] test github issue 568: Incorrect stereochemistry after embedding 148: 148: C1=NC[C@]2(CN3CC[C@@H]2C3)O1 168/243 Test #171: pyMMPA ................................. Passed 0.99 sec test 172 Start 172: testRascalMCES 172: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/testRascalMCES 172: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES 172: Test timeout computed to be: 1500 148: O=C(O)[C@@H]1[C@H](C(=O)O)[C@H]2CC[C@@H]1O2 148: O=C(CCc1ccccc1)OC[C@H]1C[C@@H]2O[C@H]1[C@H]1C(=O)OC(=O)[C@H]12 148: Cn1cc(C2=NC[C@]3(CN4CC[C@@H]3C4)O2)c2ccccc21 148: Nc1ncnc2c1ncn2[C@@H]1C=C(CO)[C@@H](O)[C@H]1O 148: CO[C@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 148: CO[C@@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 148: CCS[C@@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 148: CCCCC[C@H](O)/C=C/[C@@]1(F)[C@H](O)C[C@H](O)[C@@H]1C/C=C\CCCC(=O)OC 148: CCCCC[C@@H](O)/C=C/[C@@]1(F)[C@H](C/C=C\CCCC(=O)OC)[C@H](O)C[C@@H]1O 148: CNC(=O)Oc1cccc2c1OC[C@@H]1CCN(C)[C@H]21 148: CNC(=O)Oc1ccc2c(c1)[C@@H]1[C@@H](CCN1C)CO2 148: CN1CC[C@H]2COc3c(O)cccc3[C@H]21 148: CC(=O)C[C@@]12CCC[C@H]1[C@@H]1CCC3=CC(=O)CC[C@@H]3[C@H]1CC2 165: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 165: MCS MatchStereo true : [#6]-[#6]-[#6] 3 atoms, 2 bonds 165: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 165: MCS MatchStereo true : [#6]-[#6]-[#6] 3 atoms, 2 bonds 165: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 165: MCS MatchStereo true : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 165: TOTAL Time elapsed 7.14 seconds 169/243 Test #165: testFMCS ............................... Passed 7.17 sec test 173 Start 173: testRascalCluster 173: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/testRascalCluster 173: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES 173: Test timeout computed to be: 1500 148: O=C(O)[C@@H]1C[C@H]2C[C@@H](CCc3nn[nH]n3)CC[C@H]2CN1 148: COc1ccc2c(c1)OC[C@@H](N1CCC(O)(c3ccc(F)cc3)CC1)[C@H]2O 148: Oc1ccc2c(c1)OC[C@@H](N1CCC(Cc3ccccc3)CC1)[C@H]2O 148: Oc1ccc2c(c1)OC[C@H](N1CCC(O)(c3ccccc3)CC1)[C@@H]2O 148: CC(=O)c1ccc2c(c1)[C@@]13CCCC[C@H]1[C@@H](C2)N(CC1CC1)CC3 172: Randomness seeded to: 702386663 172: =============================================================================== 172: All tests passed (1588 assertions in 35 test cases) 172: 170/243 Test #172: testRascalMCES ......................... Passed 5.40 sec test 174 Start 174: pyRascalMCES 174: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/Wrap/testRascalMCES.py" 174: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RascalMCES/Wrap 174: Test timeout computed to be: 1500 174: ..........[20:40:59] Too many matching bond pairs (1032) so can't continue. 148: CC(=O)O[C@@H]1CC[C@@H]2CN3CCc4cc5c(cc4[C@@H]3C[C@@H]2C1)OCO5 148: COc1cc2c(cc1OC)[C@@H]1C[C@@H]3C[C@H](O)CC[C@@H]3CN1CC2 173: Randomness seeded to: 2493065363 173: /build/reproducible-path/rdkit-202503.6/Code/GraphMol/RascalMCES/data/chembl_1907596.smi 174: .... 174: ---------------------------------------------------------------------- 174: Ran 14 tests in 0.840s 174: 174: OK 171/243 Test #174: pyRascalMCES ........................... Passed 1.10 sec test 175 Start 175: testSynthonSpaceSubstructureSearch 175: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch 175: Test timeout computed to be: 1500 149: [20:41:00] Interrupted, cancelling conformer generation 148: N#C[C@@H]1C[C@@H]2CN3CCc4cc5c(cc4[C@@H]3C[C@@H]2C[C@@H]1O)OCO5 148: COC(=O)[C@@H]1C[C@](C)(C(=O)O)NC(=O)N1 148: CC(=O)OC1=C(Sc2ccccc2)C[C@H]2Cc3cc4cccc(O)c4c(O)c3C(=O)[C@H]2C1 175: Randomness seeded to: 4245606935 175: [20:41:01] Writing the enumerated file may take quite some time and result in a large file. 148: Nc1ncnc2c1ncn2[C@@H]1C[C@H](CO)[C@@H](O)C1 148: C[C@H](C(N)=O)N1CC[C@@]23CCCC[C@@H]2[C@@H]1Cc1ccc(OCc2cccc(F)c2)cc13 175: [20:41:02] Building the fingerprints may take some time. 148: CN1C(=O)CC[C@@]2(C)C1=CCc1cc(Cl)ccc12 148: Cc1nc(COc2ccc3c(c2)[C@@H](O)[C@@H](Cc2cccnc2)CO3)ccc1[N+](=O)[O-] 175: [20:41:03] 175: 175: **** 175: Invariant Violation 175: molzip: bond info not properly setup for bgn atom with label:1 175: Violation occurred on line 1093 in file ./Code/GraphMol/ChemTransforms/MolFragmenter.cpp 175: Failed Expression: bond.a 175: ---------- 175: Stacktrace: 175: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 175: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 175: 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.1 175: 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.1 175: 4# RDKit::molzip(RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitChemTransforms.so.1 175: 5# RDKit::SynthonSpaceSearch::SynthonSet::makeSynthonSearchMols() in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 175: 6# RDKit::SynthonSpaceSearch::SynthonSpace::readStream(std::istream&, bool&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 175: 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.1 175: 8# 0x0000AAAACC33ECD4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: 9# 0x0000AAAACC38950C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: 10# 0x0000AAAACC389EC0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: 11# 0x0000AAAACC38A2F4 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: 12# 0x0000AAAACC35EA58 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: 13# 0x0000AAAACC35EF8C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: 14# 0x0000AAAACC33DC2C in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: 15# 0x0000FFFF9602229C in /lib/aarch64-linux-gnu/libc.so.6 175: 16# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 175: 17# 0x0000AAAACC33DCF0 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 175: ---------- 175: **** 175: 175: [20:41:03] Error:: in reaction amide-1 :: building molecule from synthons : 1-1 (c1cc[1*]ccc1C(=O)[1*]) and 2-1 ([1*]N1CCCC1) 175: molzip: bond info not properly setup for bgn atom with label:1 175: [20:41:03] Explicit valence for atom # 4 C, 5, is greater than permitted 175: [20:41:03] Error:: in reaction error-1 :: building molecule from synthons : 1-1 (C(=[2*])=CC=[1*]) and 2-1 (ClC([2*])=CN=[1*]) 175: Explicit valence for atom # 4 C, 5, is greater than permitted 175: [20:41:03] Complex queries can be slow. 175: [20:41:03] Complex queries can be slow. 175: [20:41:03] Complex queries can be slow. 175: [20:41:03] Complex queries can be slow. 175: [20:41:03] Complex queries can be slow. 175: [20:41:03] Complex queries can be slow. 175: [20:41:03] Complex queries can be slow. 175: [20:41:03] Complex queries can be slow. 175: [20:41:03] Complex queries can be slow. 175: [20:41:04] Complex queries can be slow. 175: [20:41:04] Complex queries can be slow. 148: [20:41:07] Molecule does not have explicit Hs. Consider calling AddHs() 148: [20:41:03] --------------------------------- 148: [20:41:03] test github issue 696: Bad 1-4 bounds matrix elements in highly constrained system 148: [20:41:03] --------------------------------- 148: [20:41:03] More ChEMBL molecules failing bounds smoothing. 148: [20:41:03] --------------------------------- 148: [20:41:03] ugly conformations can be generated for highly constrained ring systems. 148: [20:41:03] --------------------------------- 148: [20:41:03] test embed parameters structure. 148: [20:41:03] --------------------------------- 148: [20:41:03] test github 1227: Hs being used in RMSD filtering. 148: [20:41:03] --------------------------------- 148: [20:41:03] Failure to embed larger aromatic rings. 148: [20:41:04] --------------------------------- 148: [20:41:04] Deterministic with large random seeds 148: [20:41:06] --------------------------------- 148: [20:41:06] Github #1990: seg fault after RemoveHs 148: [20:41:06] --------------------------------- 148: [20:41:06] Github #2246: Use coordMap when starting embedding from random coords 148: [20:41:07] --------------------------------- 148: [20:41:07] Providing a distance bounds matrix. 148: [20:41:07] --------------------------------- 148: [20:41:07] Disabling fragmentation. 148: [20:41:07] --------------------------------- 148: [20:41:07] Using symmetry in conformation pruning. 148: [20:41:07] --------------------------------- 148: [20:41:07] Force trans amides. 148: [20:41:07] --------------------------------- 148: [20:41:07] test missing Hs warning. 148: [20:41:07] --------------------------------- 148: [20:41:07] basic H bond support. 148: [20:41:07] ******************************************************* 172/243 Test #148: testDistGeomHelpers .................... Passed 42.85 sec test 176 Start 176: testSynthonSpaceRascalSearch 176: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceRascalSearch 176: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SynthonSpaceSearch 176: Test timeout computed to be: 1500 175: [20:41:07] Complex queries can be slow. 175: [20:41:07] Complex queries can be slow. 175: [20:41:07] Complex queries can be slow. 176: Randomness seeded to: 2863273350 176: =============================================================================== 176: All tests passed (15 assertions in 1 test case) 176: 173/243 Test #176: testSynthonSpaceRascalSearch ........... Passed 0.67 sec test 177 Start 177: testEnumerateStereoisomers 177: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/testEnumerateStereoisomers 177: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers 177: Test timeout computed to be: 1500 175: [20:41:07] Complex queries can be slow. 175: [20:41:07] Complex queries can be slow. 175: [20:41:07] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 8 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 29 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 49 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 70 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 89 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 111 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 132 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 153 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 175 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 195 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 215 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 236 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 256 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 278 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 297 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 319 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 339 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 360 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 380 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 402 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 422 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 443 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 464 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 484 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 505 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 525 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 547 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 566 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 586 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 605 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 624 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 645 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 666 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 686 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 707 149: [20:41:08] UFFTYPER: Warning: hybridization set to SP3 for atom 729 175: [20:41:08] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 149: =============================================================================== 149: All tests passed (12767 assertions in 24 test cases) 149: 174/243 Test #149: distGeomHelpersCatch ................... Passed 44.41 sec test 178 Start 178: pyNewEnumerateStereoisomers 178: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/EnumerateStereoisomers/Wrap/testEnumerateStereoisomers.py" 178: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap 178: Test timeout computed to be: 1500 175: [20:41:08] Complex queries can be slow. 175: [20:41:08] Complex queries can be slow. 175: [20:41:09] Complex queries can be slow. 175: [20:41:09] Complex queries can be slow. 175: =============================================================================== 175: All tests passed (138 assertions in 21 test cases) 175: 175/243 Test #175: testSynthonSpaceSubstructureSearch ..... Passed 9.30 sec test 179 Start 179: testCIPLabeler 179: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/testCIPLabeler 179: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler 179: Test timeout computed to be: 1500 179: Randomness seeded to: 1832500280 179: [20:41:09] non kekulizable aromatic bond being treated as bond order 1 179: [20:41:09] non kekulizable aromatic bond being treated as bond order 1 179: [20:41:09] non kekulizable aromatic bond being treated as bond order 1 179: [20:41:09] non kekulizable aromatic bond being treated as bond order 1 179: [20:41:09] non kekulizable aromatic bond being treated as bond order 1 179: [20:41:09] non kekulizable aromatic bond being treated as bond order 1 178: .. 178: ---------------------------------------------------------------------- 178: Ran 2 tests in 0.345s 178: 178: OK 176/243 Test #178: pyNewEnumerateStereoisomers ............ Passed 0.59 sec test 180 Start 180: pyCIPLabelsWrapTest 180: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Wrap/pyCIPLabelWrapTest.py" 180: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap 180: Test timeout computed to be: 1500 179: [20:41:09] Interrupted, cancelling CIP label calculation 179: [20:41:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 179: [20:41:09] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 179: =============================================================================== 179: All tests passed (6595 assertions in 20 test cases) 179: 177/243 Test #179: testCIPLabeler ......................... Passed 0.32 sec test 181 Start 181: pyCIPLabelsValidation 181: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/CIPLabeler/Wrap/pyCIPLabelsValidation.py" 181: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap 181: Test timeout computed to be: 1500 180: .... 180: ---------------------------------------------------------------------- 180: Ran 4 tests in 0.009s 180: 180: OK 178/243 Test #180: pyCIPLabelsWrapTest .................... Passed 0.19 sec test 182 Start 182: deprotectTest 182: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/deprotectTest 182: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect 182: Test timeout computed to be: 1500 182: Randomness seeded to: 1492087277 182: =============================================================================== 182: All tests passed (111 assertions in 3 test cases) 182: 179/243 Test #182: deprotectTest .......................... Passed 0.04 sec test 183 Start 183: pyDeprotect 183: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Deprotect/Wrap/rough_test.py" 183: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap 183: Test timeout computed to be: 1500 183: ..... 183: ---------------------------------------------------------------------- 183: Ran 5 tests in 0.020s 183: 183: OK 183: Testing tert-butyldimethylsilyl 183: Testing methoxytrityl 183: Testing tetrahydropyranyl 183: Testing methoxymethyl_ether 183: Testing beta-Methoxyethoxymethyl_ether 183: Testing benzyl 183: Testing trimethylsilyl 183: Testing benzoyl 183: Testing pivaloyl 183: Testing triisopropylsilyl 183: Testing acetyl 183: Testing para-methoxybenzyl_ether 183: Testing triphenylmethyl 183: Testing phthaloyl 183: Testing trimethylsilylethoxymethyl 183: Testing para-methoxyphenyl 183: Testing tosyl 183: Testing tert-butyloxycarbonyl 183: Testing trifluoroacetyl 183: Testing benzoyl 183: Testing 9-fluorenylmethyloxycarbonyl 183: Testing benzylamine 183: Testing acetamide 183: Testing carbobenzyloxy 183: Testing Acetal/Ketal 183: Testing tert-butyldimethylsilyl 183: Testing methoxytrityl 183: Testing tetrahydropyranyl 183: Testing methoxymethyl_ether 183: Testing beta-Methoxyethoxymethyl_ether 183: Testing benzyl 183: Testing trimethylsilyl 183: Testing benzoyl 183: Testing pivaloyl 183: Testing triisopropylsilyl 183: Testing acetyl 183: Testing para-methoxybenzyl_ether 183: Testing triphenylmethyl 183: Testing phthaloyl 183: Testing trimethylsilylethoxymethyl 183: Testing para-methoxyphenyl 183: Testing tosyl 183: Testing tert-butyloxycarbonyl 183: Testing trifluoroacetyl 183: Testing benzoyl 183: Testing 9-fluorenylmethyloxycarbonyl 183: Testing benzylamine 183: Testing acetamide 183: Testing carbobenzyloxy 183: Testing Acetal/Ketal 180/243 Test #183: pyDeprotect ............................ Passed 0.21 sec test 184 Start 184: testReducedGraphs 184: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/testReducedGraphs 184: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs 184: Test timeout computed to be: 1500 184: 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, 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, 0.3, 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, ] 184: 181/243 Test #184: testReducedGraphs ...................... Passed 0.02 sec test 185 Start 185: pyReducedGraphs 185: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ReducedGraphs/Wrap/testReducedGraphs.py" 185: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap 185: Test timeout computed to be: 1500 185: ..... 185: ---------------------------------------------------------------------- 185: Ran 5 tests in 0.008s 185: 185: OK 182/243 Test #185: pyReducedGraphs ........................ Passed 0.25 sec test 186 Start 186: trajectoryTest 186: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/trajectoryTest 186: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory 186: Test timeout computed to be: 1500 183/243 Test #186: trajectoryTest ......................... Passed 0.20 sec test 187 Start 187: substructLibraryTest 187: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/substructLibraryTest 187: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary 187: Test timeout computed to be: 1500 187: [20:41:10] ------------------------------------- 187: [20:41:10] Test1 187: [20:41:10] done 187: [20:41:10] ------------------------------------- 187: [20:41:10] Test2 187: [20:41:10] done 187: [20:41:10] ------------------------------------- 187: [20:41:10] Test3 (stereo options) 187: [20:41:10] Done (stereo options) 187: [20:41:10] ------------------------------------- 187: [20:41:10] Test4 (trusted smiles) 187: [20:41:10] Done (trusted smiles) 187: [20:41:10] ------------------------------------- 187: [20:41:10] Testing C++ docs 187: [20:41:10] Done (C++ doc tests) 187: [20:41:10] ------------------------------------- 187: [20:41:10] Testing C++ ring query: PatternHolder 187: [20:41:10] Done (C++ ring query tests) 187: [20:41:10] ------------------------------------- 187: [20:41:10] Testing C++ ring query: TautomerPatternHolder 187: [20:41:10] Done (C++ ring query tests) 187: [20:41:10] ------------------------------------- 187: [20:41:10] Add Patterns 187: [20:41:12] ------------------------------------- 187: [20:41:12] testing PatternHolder 187: [20:41:12] ------------------------------------- 187: [20:41:12] testing TautomerPatternHolder 187: [20:41:12] ------------------------------------- 187: [20:41:12] testSegFaultInHolder 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error[20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1[20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1[20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: : 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] [20:41:12] SMILES Parse Error: syntax error: while parsing: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] [20:41:12] SMILES Parse Error: syntax error while parsing: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position dsafsdf 187: [20:41:12] SMILES1: 187: Parse Error: check for mistakes around position while parsing: dsafsdf[20:41:12] dsafsdf 187: 187: 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^[20:41:12] [20:41:12] ^ 187: SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf[20:41:12] ^ 187: 187: [20:41:12] SMILESSMILES Parse Error: syntax errordsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf[20:41:12] [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf'[20:41:12] ' 187: 187: while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position [20:41:12] SMILES Parse Error: SMILES1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: Parse Error: syntax error while parsing: dsafsdf 187: Failed parsing SMILES 'dsafsdf' 187: for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^[20:41:12] [20:41:12] SMILES 187: Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^dsafsdf 187: [20:41:12] ^[20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' 187: for input: 'SMILESSMILES Parse Error: check for mistakes around position 1: 187: Parse Error: 187: [20:41:12] dsafsdfsyntax error[20:41:12] ' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: ^ 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: [20:41:12] Parse Error: ^syntax error while parsing: SMILES Parse Error: Failed parsing SMILES 'dsafsdf'dsafsdf 187: Failed parsing SMILES 'dsafsdf'[20:41:12] for input: 'dsafsdf' 187: SMILES 187: Parse Error: check for mistakes around position 1[20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: : 187: [20:41:12] dsafsdf 187: for input: ' while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position dsafsdf[20:41:12] '[20:41:12] SMILES1: 187: [20:41:12] dsafsdf 187: Parse Error: 187: SMILES[20:41:12] [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position ^ 187: Parse Error: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf'syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1 for input: 'dsafsdf: 187: [20:41:12] dsafsdf 187: '1 187: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: : 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: [20:41:12] ^ 187: dsafsdf 187: [20:41:12] SMILES[20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES[20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: ' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1:[20:41:12] SMILES Parse Error: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: '[20:41:12] SMILESdsafsdfsyntax error while parsing: dsafsdf 187: [20:41:12] '[20:41:12] 187: SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: '[20:41:12] [20:41:12] SMILESdsafsdf' 187: Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] SMILES Parse Error: syntax error while parsing: dsafsdf 187: [20:41:12] SMILES Parse Error: check for mistakes around position 1: 187: [20:41:12] dsafsdf 187: [20:41:12] ^ 187: [20:41:12] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 187: [20:41:12] ------------------------------------- 187: [20:41:12] Results do not depend on numThreads 181: VS001: PASSED 181: VS002: PASSED 181: VS003: PASSED 181: VS004: PASSED 181: VS005: PASSED 181: VS006: PASSED 181: VS007: PASSED 181: VS008: PASSED 181: VS009: PASSED 181: VS010: PASSED 181: VS011: PASSED 181: VS012: PASSED 181: VS013: PASSED 181: VS014: PASSED 181: VS015: PASSED 181: VS016: PASSED 181: VS017: PASSED 181: VS018: PASSED 181: VS019: PASSED 181: VS020: PASSED 181: VS021: PASSED 181: VS022: PASSED 181: VS023: PASSED 181: VS024: PASSED 181: VS025: PASSED 181: VS026: PASSED 181: VS027: PASSED 181: VS028: PASSED 181: VS029: PASSED 181: VS030: PASSED 181: VS031: PASSED 181: VS032: PASSED 181: VS033: PASSED 181: VS034: PASSED 181: VS035: PASSED 181: VS036: PASSED 181: VS037: PASSED 181: VS038: PASSED 181: VS039: PASSED 181: VS040: PASSED 181: VS041: PASSED 181: VS042: PASSED 181: VS043: PASSED 181: VS044: PASSED 181: VS045: PASSED 181: VS046: PASSED 181: VS047: PASSED 181: VS048: PASSED 181: VS049: PASSED 181: VS050: PASSED 181: VS051: PASSED 181: VS052: PASSED 181: VS053: PASSED 181: VS054: PASSED 181: VS055: PASSED 181: VS056: PASSED 181: VS057: PASSED 181: VS058: PASSED 181: VS059: PASSED 181: VS060: PASSED 181: VS061: PASSED 181: VS062: PASSED 181: VS063: PASSED 181: VS064: PASSED 181: VS065: PASSED 181: VS066: PASSED 181: VS067: PASSED 181: VS068: PASSED 181: VS069: PASSED 181: VS070: PASSED 181: VS071: PASSED 181: VS072: PASSED 181: VS073: PASSED 181: VS074: PASSED 181: VS075: PASSED 181: VS076: PASSED 181: VS077: PASSED 181: VS078: PASSED 181: VS079: PASSED 181: VS080: PASSED 181: VS081: PASSED 181: VS082: PASSED 181: VS083: PASSED 181: VS084: PASSED 181: VS085: PASSED 181: VS086: PASSED 181: VS087: PASSED 181: VS088: PASSED 181: VS089: PASSED 181: VS090: PASSED 181: VS091: PASSED 181: VS092: PASSED 181: VS093: PASSED 181: VS094: PASSED 181: VS095: PASSED 181: VS096: PASSED 181: VS097: PASSED 181: VS098: PASSED 181: VS099: PASSED 181: VS100: PASSED 181: VS101: PASSED 181: VS102: PASSED 181: VS103: PASSED 181: VS104: PASSED 181: VS105: PASSED 181: VS106: PASSED 181: VS107: PASSED 181: VS108: PASSED 181: VS109: PASSED 181: VS110: PASSED 181: VS111: PASSED 181: VS112: PASSED 181: VS113: PASSED 181: VS114: PASSED 181: VS115: PASSED 181: VS116: PASSED 181: VS117: PASSED 181: VS118: PASSED 181: VS119: PASSED 181: VS120: PASSED 181: VS121: PASSED 181: VS122: PASSED 181: VS123: PASSED 181: VS124: PASSED 181: VS125: PASSED 181: VS126: PASSED 181: VS127: PASSED 181: VS128: PASSED 181: VS129: PASSED 181: VS130: PASSED 181: VS131: PASSED 181: VS132: PASSED 181: VS133: PASSED 181: VS134: PASSED 181: VS135: PASSED 181: VS136: PASSED 181: VS137: PASSED 181: VS138: PASSED 181: VS139: PASSED 181: VS140: PASSED 181: VS141: PASSED 181: VS142: PASSED 181: VS143: PASSED 181: VS144: PASSED 181: 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failed. 181: Failed: 184/243 Test #181: pyCIPLabelsValidation .................. Passed 3.36 sec test 188 Start 188: substructLibraryCatchTest 188: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/substructLibraryCatchTest 188: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary 188: Test timeout computed to be: 1500 188: Randomness seeded to: 1803522011 188: =============================================================================== 188: All tests passed (171 assertions in 5 test cases) 188: 185/243 Test #188: substructLibraryCatchTest .............. Passed 0.09 sec test 189 Start 189: pySubstructLibrary 189: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/SubstructLibrary/Wrap/rough_test.py" 189: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap 189: Test timeout computed to be: 1500 187: [20:41:13] ------------------------------------- 187: [20:41:13] Results do not depend on numThreads (all same) 187: [20:41:13] ------------------------------------- 187: [20:41:13] testTautomerQueries 187: [20:41:13] Pattern fingerprints for tautomersearch aren't tautomer fingerprints, ignoring... 187: [20:41:13] ------------------------------------- 187: [20:41:13] github3881 recursive smarts with rings 186/243 Test #187: substructLibraryTest ................... Passed 3.62 sec test 190 Start 190: testRGroupDecomp 190: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/testRGroupDecomp 190: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition 190: Test timeout computed to be: 1500 190: [20:41:14] Non terminal R group defined. To allow set allowNonTerminalRGroups in RGroupDecompositionParameters 190: [20:41:14] WARNING: not removing hydrogen atom with dummy atom neighbors 190: iterative 190: bulk 189: ......[20:41:16] 189: 189: **** 189: Pre-condition Violation 189: RingInfo not initialized 189: Violation occurred on line 52 in file ./Code/GraphMol/RingInfo.cpp 189: Failed Expression: df_init 189: ---------- 189: Stacktrace: 189: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 189: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 189: 2# RDKit::RingInfo::numAtomRings(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 189: 3# RDKit::AtomRingQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitSmilesParse.so.1 189: 4# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 189: 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.1 189: 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.1 189: 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.1 189: 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.1 189: 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.1 189: 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 189: 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 189: 12# 0x0000FFFFA4CB5E40 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 13# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 14# 0x0000FFFFA6802680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 15# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 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 189: 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 189: 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 189: 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 189: 20# 0x0000FFFFA4C14220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 21# 0x0000FFFFA4C141BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 22# 0x0000FFFFA4C14158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 23# 0x0000FFFFA4C140E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 24# 0x0000FFFFA4C14084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 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 189: 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 189: 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 189: 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 189: 29# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 30# 0x0000FFFFA67FF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 31# _PyObject_MakeTpCall in /usr/bin/python3 189: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 33# 0x000000000053D490 in /usr/bin/python3 189: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 35# 0x0000000000626920 in /usr/bin/python3 189: 36# 0x00000000005AA5E4 in /usr/bin/python3 189: 37# _PyObject_MakeTpCall in /usr/bin/python3 189: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 39# 0x000000000053D490 in /usr/bin/python3 189: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 41# 0x0000000000626920 in /usr/bin/python3 189: 42# 0x00000000005AA5E4 in /usr/bin/python3 189: 43# _PyObject_MakeTpCall in /usr/bin/python3 189: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 45# 0x000000000053D490 in /usr/bin/python3 189: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 47# 0x0000000000626920 in /usr/bin/python3 189: 48# 0x00000000005AA5E4 in /usr/bin/python3 189: 49# _PyObject_MakeTpCall in /usr/bin/python3 189: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 51# 0x000000000050B134 in /usr/bin/python3 189: 52# _PyObject_MakeTpCall in /usr/bin/python3 189: 53# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 54# PyEval_EvalCode in /usr/bin/python3 189: 55# 0x000000000064AE1C in /usr/bin/python3 189: 56# 0x0000000000646A70 in /usr/bin/python3 189: 57# 0x000000000066A1B0 in /usr/bin/python3 189: 58# 0x0000000000669A54 in /usr/bin/python3 189: 59# 0x00000000006697EC in /usr/bin/python3 189: 60# Py_RunMain in /usr/bin/python3 189: 61# Py_BytesMain in /usr/bin/python3 189: 62# 0x0000FFFFA724229C in /lib/aarch64-linux-gnu/libc.so.6 189: 63# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 189: 64# _start in /usr/bin/python3 189: ---------- 189: **** 189: 189: [20:41:16] 189: 189: **** 189: Pre-condition Violation 189: RingInfo not initialized 189: Violation occurred on line 129 in file ./Code/GraphMol/RingInfo.cpp 189: Failed Expression: df_init 189: ---------- 189: Stacktrace: 189: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 189: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 189: 2# RDKit::RingInfo::numBondRings(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 189: 3# 0x0000FFFFA4769BA8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 189: 4# Queries::EqualityQuery::Match(RDKit::Bond const*) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 189: 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.1 189: 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.1 189: 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.1 189: 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.1 189: 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.1 189: 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.1 189: 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 189: 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 189: 13# 0x0000FFFFA4CB5E40 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 14# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 15# 0x0000FFFFA6802680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 16# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 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 189: 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 189: 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 189: 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 189: 21# 0x0000FFFFA4C14220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 22# 0x0000FFFFA4C141BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 23# 0x0000FFFFA4C14158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 24# 0x0000FFFFA4C140E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 25# 0x0000FFFFA4C14084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 189: 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 189: 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 189: 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 189: 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 189: 30# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 31# 0x0000FFFFA67FF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 189: 32# _PyObject_MakeTpCall in /usr/bin/python3 189: 33# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 34# 0x000000000053D490 in /usr/bin/python3 189: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 36# 0x0000000000626920 in /usr/bin/python3 189: 37# 0x00000000005AA5E4 in /usr/bin/python3 189: 38# _PyObject_MakeTpCall in /usr/bin/python3 189: 39# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 40# 0x000000000053D490 in /usr/bin/python3 189: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 42# 0x0000000000626920 in /usr/bin/python3 189: 43# 0x00000000005AA5E4 in /usr/bin/python3 189: 44# _PyObject_MakeTpCall in /usr/bin/python3 189: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 46# 0x000000000053D490 in /usr/bin/python3 189: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 48# 0x0000000000626920 in /usr/bin/python3 189: 49# 0x00000000005AA5E4 in /usr/bin/python3 189: 50# _PyObject_MakeTpCall in /usr/bin/python3 189: 51# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 52# 0x000000000050B134 in /usr/bin/python3 189: 53# _PyObject_MakeTpCall in /usr/bin/python3 189: 54# _PyEval_EvalFrameDefault in /usr/bin/python3 189: 55# PyEval_EvalCode in /usr/bin/python3 189: 56# 0x000000000064AE1C in /usr/bin/python3 189: 57# 0x0000000000646A70 in /usr/bin/python3 189: 58# 0x000000000066A1B0 in /usr/bin/python3 189: 59# 0x0000000000669A54 in /usr/bin/python3 189: 60# 0x00000000006697EC in /usr/bin/python3 189: 61# Py_RunMain in /usr/bin/python3 189: 62# Py_BytesMain in /usr/bin/python3 189: 63# 0x0000FFFFA724229C in /lib/aarch64-linux-gnu/libc.so.6 189: 64# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 189: 65# _start in /usr/bin/python3 189: ---------- 189: **** 189: 177: Randomness seeded to: 4030600842 177: =============================================================================== 177: All tests passed (90 assertions in 16 test cases) 177: 187/243 Test #177: testEnumerateStereoisomers ............. Passed 9.80 sec test 191 Start 191: testRGroupDecompInternals 191: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/testRGroupDecompInternals 191: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition 191: Test timeout computed to be: 1500 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 191: [20:41:17] WARNING: not removing hydrogen atom with dummy atom neighbors 188/243 Test #191: testRGroupDecompInternals .............. Passed 0.03 sec test 192 Start 192: rgroupCatchTests 192: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/rgroupCatchTests 192: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition 192: Test timeout computed to be: 1500 190: bulk, no symmetry 192: Randomness seeded to: 2361626349 192: =============================================================================== 192: All tests passed (1479 assertions in 14 test cases) 192: 189/243 Test #192: rgroupCatchTests ....................... Passed 0.21 sec test 193 Start 193: pyRGroupDecomposition 193: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/RGroupDecomposition/Wrap/test_rgroups.py" 193: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap 193: Test timeout computed to be: 1500 190: [20:41:18] Relabelling existing label 190: Best mapping 190/243 Test #190: testRGroupDecomp ....................... Passed 4.31 sec test 194 Start 194: determineBondsCatchTest 194: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/determineBondsCatchTest 194: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds 194: Test timeout computed to be: 1500 189: ............. 189: ---------------------------------------------------------------------- 189: Ran 19 tests in 5.461s 189: 189: OK 189: Testing atom rings 189: testing bond rings 189: searching atom rings 189: searching bond rings 189: done 191/243 Test #189: pySubstructLibrary ..................... Passed 5.70 sec test 195 Start 195: pyDetermineBonds 195: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/DetermineBonds/Wrap/testDetermineBonds.py" 195: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap 195: Test timeout computed to be: 1500 194: Randomness seeded to: 2522639793 194: [20:41:18] Interrupted, cancelling determine Bond Orders 194: =============================================================================== 194: All tests passed (5184 assertions in 10 test cases) 194: 192/243 Test #194: determineBondsCatchTest ................ Passed 0.46 sec test 196 Start 196: molInterchangeTest1 196: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/molInterchangeTest1 196: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange 196: Test timeout computed to be: 1500 196: [20:41:18] test1: basics 196: [20:41:18] done 196: [20:41:18] test2: basic writing 196: {"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]}]}]} 196: {"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"]]}]}]} 196: {"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]]}]}]} 196: {"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]]}]}]} 196: [20:41:18] done 196: [20:41:18] test3: writing conformers 196: {"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]}]}]} 196: [20:41:18] done 196: [20:41:18] test4: writing properties 196: {"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]}]}]} 196: [20:41:18] done 196: [20:41:18] test5: writing partial charges 196: {"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]}]}]} 196: [20:41:18] testing parse options 196: [20:41:18] done 196: [20:41:18] testing github #2046: CIPRank values from JSONDataToMols are not unsigned 196: {"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]]}]}]} 196: [20:41:18] done 196: [20:41:18] testing 'either' stereochemistry 196: [20:41:18] done 193/243 Test #196: molInterchangeTest1 .................... Passed 0.04 sec test 197 Start 197: molInterchangeCatchTest 197: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/molInterchangeCatchTest 197: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange 197: Test timeout computed to be: 1500 197: Randomness seeded to: 229297561 197: [20:41:18] unrecognized bond type 12 set to zero while writing 197: [20:41:18] unrecognized bond type 0 set to zero while writing 197: =============================================================================== 197: All tests passed (148 assertions in 8 test cases) 197: 194/243 Test #197: molInterchangeCatchTest ................ Passed 0.05 sec test 198 Start 198: pyMolInterchange 198: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInterchange/Wrap/testMolInterchange.py" 198: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap 198: Test timeout computed to be: 1500 193: .................... 193: ---------------------------------------------------------------------- 193: Ran 20 tests in 0.883s 193: 193: OK 195/243 Test #193: pyRGroupDecomposition .................. Passed 1.12 sec test 199 Start 199: testSLNParse 199: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/testSLNParse 199: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse 199: Test timeout computed to be: 1500 195: .s... 195: ---------------------------------------------------------------------- 195: Ran 5 tests in 0.153s 195: 195: OK (skipped=1) 199: Atoms: 199: 0 6 C chg: 1 deg: 5 exp: N/A imp: 0 hyb: 199: 1 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 199: 2 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 199: 3 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 199: 4 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 199: 5 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 199: Bonds: 199: 0 0->1 order: 1 199: 1 0->2 order: 1 199: 2 0->3 order: 1 199: 3 0->4 order: 1 199: 4 0->5 order: 1 199: [20:41:19] SLN Parse Error: syntax error while parsing: CH4[I=13] 199: [20:41:19] Failed parsing SLN 'CH4[I=13]' 199: [20:41:19] SLN Parser error: Atom ID 1 appears *after* its ring closure. 199: [20:41:19] SLN Parser error: Ring closure 1 does not have a corresponding opener. 199: [20:41:19] SLN Parse Error: syntax error while parsing: CH2(C@1H2)CH2(CH2CH2C[1]H2) 199: [20:41:19] Failed parsing SLN 'CH2(C@1H2)CH2(CH2CH2C[1]H2)' 199: [20:41:19] SLN Parse Error: syntax error while parsing: CH2(CH2[1])CH2(CH2CH2CH2@1) 199: [20:41:19] Failed parsing SLN 'CH2(CH2[1])CH2(CH2CH2CH2@1)' 199: [20:41:19] SLN Parse Error: syntax error while parsing: CH4 fff 199: [20:41:19] Failed parsing SLN 'CH4 fff' 199: [20:41:19] SLN Parse Error: syntax error while parsing: C[charge=+1] foo 199: [20:41:19] Failed parsing SLN 'C[charge=+1] foo' 198: .. 198: ---------------------------------------------------------------------- 198: Ran 2 tests in 0.006s 198: 198: OK 199: [20:41:19] Query property 'is' ignored on non-query atom 199: [20:41:19] Query property 'is' ignored on non-query atom 196/243 Test #199: testSLNParse ........................... Passed 0.05 sec test 200 Start 200: pySLNParse 200: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/SLNParse/Wrap/testSLN.py" 200: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/Wrap 200: Test timeout computed to be: 1500 197/243 Test #195: pyDetermineBonds ....................... Passed 0.35 sec test 201 Start 201: pyGraphMolWrap 201: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/rough_test.py" 201: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 201: Test timeout computed to be: 1500 198/243 Test #198: pyMolInterchange ....................... Passed 0.23 sec test 202 Start 202: pyTestConformerWrap 202: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testConformer.py" 202: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 202: Test timeout computed to be: 1500 200: .. 200: ---------------------------------------------------------------------- 200: Ran 2 tests in 0.005s 200: 200: OK 202: ...... 202: ---------------------------------------------------------------------- 202: Ran 6 tests in 0.008s 202: 202: OK 199/243 Test #200: pySLNParse ............................. Passed 0.21 sec test 203 Start 203: pyTestTrajectory 203: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testTrajectory.py" 203: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 203: Test timeout computed to be: 1500 200/243 Test #202: pyTestConformerWrap .................... Passed 0.21 sec test 204 Start 204: pyTestSGroups 204: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testSGroups.py" 204: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 204: Test timeout computed to be: 1500 201: ..............[20:41:19] SMARTS Parse Error: syntax error while parsing: fiib 201: [20:41:19] SMARTS Parse Error: check for mistakes around position 1: 201: [20:41:19] fiib 201: [20:41:19] ^ 201: [20:41:19] SMARTS Parse Error: Failed parsing SMARTS 'fiib' for input: 'fiib' 201: ....[20:41:19] ERROR: Problems encountered parsing data fields 201: [20:41:19] ERROR: moving to the beginning of the next molecule 201: [20:41:19] ERROR: Problems encountered parsing data fields 201: [20:41:19] ERROR: moving to the beginning of the next molecule 201: [20:41:19] Spurious data before the first property will be ignored 201: [20:41:19] Property will be truncated after the first blank line 201: [20:41:19] Property will be truncated after the first blank line 201: [20:41:19] Property will be truncated after the first blank line 201: [20:41:19] ERROR: Problems encountered parsing data fields 201: [20:41:19] ERROR: moving to the beginning of the next molecule 201: [20:41:19] ERROR: Problems encountered parsing data fields 201: [20:41:19] ERROR: moving to the beginning of the next molecule 201: [20:41:19] Spurious data before the first property will be ignored 201: [20:41:19] Property will be truncated after the first blank line 201: [20:41:19] Property will be truncated after the first blank line 201: [20:41:19] Property will be truncated after the first blank line 201: [20:41:19] ERROR: Problems encountered parsing data fields 201: [20:41:19] ERROR: moving to the beginning of the next molecule 201: [20:41:19] Property will be truncated after the first blank line 201: [20:41:19] ERROR: Problems encountered parsing data fields 201: [20:41:19] ERROR: moving to the beginning of the next molecule 201: [20:41:19] Property will be truncated after the first blank line 201: .[20:41:19] SMILES Parse Error: syntax error while parsing: fail 201: [20:41:19] SMILES Parse Error: check for mistakes around position 1: 201: [20:41:19] fail 201: [20:41:19] ^ 201: [20:41:19] SMILES Parse Error: Failed parsing SMILES 'fail' for input: 'fail' 201: [20:41:19] ERROR: Smiles parse error on line 2 201: [20:41:19] ERROR: Cannot create molecule from : 'fail' 201: >>> This may result in an infinite loop. It should finish almost instantly 201: <<< OK, it finished. 201: ............[20:41:19] Explicit valence for atom # 1 C, 5, is greater than permitted 201: ......[20:41:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 201: [20:41:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 201: [20:41:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 201: [20:41:19] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 201: .........[20:41:19] non-ring atom 0 marked aromatic 201: [20:41:19] non-ring atom 0 marked aromatic 201: [20:41:19] 201: 201: **** 204: ............. 204: ---------------------------------------------------------------------- 204: Ran 13 tests in 0.013s 204: 204: OK 204: Testing SubstanceGroups wrapper 201: Range Error 201: idx 201: Violation occurred on line 209 in file ./Code/GraphMol/ROMol.cpp 201: Failed Expression: 12 < 6 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 201: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 201: 4# 0x0000FFFFA3A3BD54 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 17# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 21# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 26# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 28# _PyObject_MakeTpCall in /usr/bin/python3 201: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 30# 0x000000000053D490 in /usr/bin/python3 201: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 32# 0x0000000000626920 in /usr/bin/python3 201: 33# 0x00000000005AA5E4 in /usr/bin/python3 201: 34# _PyObject_MakeTpCall in /usr/bin/python3 201: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 36# 0x000000000053D490 in /usr/bin/python3 201: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 38# 0x0000000000626920 in /usr/bin/python3 201: 39# 0x00000000005AA5E4 in /usr/bin/python3 201: 40# _PyObject_MakeTpCall in /usr/bin/python3 201: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 42# 0x000000000053D490 in /usr/bin/python3 201: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 44# 0x0000000000626920 in /usr/bin/python3 201: 45# 0x00000000005AA5E4 in /usr/bin/python3 201: 46# _PyObject_MakeTpCall in /usr/bin/python3 201: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 48# 0x000000000050B134 in /usr/bin/python3 201: 49# _PyObject_MakeTpCall in /usr/bin/python3 201: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 51# PyEval_EvalCode in /usr/bin/python3 201: 52# 0x000000000064AE1C in /usr/bin/python3 201: 53# 0x0000000000646A70 in /usr/bin/python3 201: 54# 0x000000000066A1B0 in /usr/bin/python3 201: 55# 0x0000000000669A54 in /usr/bin/python3 201: 56# 0x00000000006697EC in /usr/bin/python3 201: 57# Py_RunMain in /usr/bin/python3 201: 58# Py_BytesMain in /usr/bin/python3 201: 59# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 60# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 61# _start in /usr/bin/python3 201: ---------- 201: **** 201: 203: [20:41:19] 203: 203: **** 201: [20:41:19] non-ring atom 0 marked aromatic 201: [20:41:19] non-ring atom 0 marked aromatic 201: [20:41:19] 201: 201: **** 203: Pre-condition Violation 203: from must be < size() 203: Violation occurred on line 91 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: from < static_cast(size()) 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: .[20:41:19] 203: 203: **** 201: Range Error 201: idx 201: Violation occurred on line 209 in file ./Code/GraphMol/ROMol.cpp 201: Failed Expression: 12 < 6 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 201: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 201: 4# 0x0000FFFFA3A3BD54 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 17# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 21# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 26# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 28# _PyObject_MakeTpCall in /usr/bin/python3 201: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 30# 0x000000000053D490 in /usr/bin/python3 201: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 32# 0x0000000000626920 in /usr/bin/python3 201: 33# 0x00000000005AA5E4 in /usr/bin/python3 201: 34# _PyObject_MakeTpCall in /usr/bin/python3 201: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 36# 0x000000000053D490 in /usr/bin/python3 201: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 38# 0x0000000000626920 in /usr/bin/python3 201: 39# 0x00000000005AA5E4 in /usr/bin/python3 201: 40# _PyObject_MakeTpCall in /usr/bin/python3 201: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 42# 0x000000000053D490 in /usr/bin/python3 201: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 44# 0x0000000000626920 in /usr/bin/python3 201: 45# 0x00000000005AA5E4 in /usr/bin/python3 201: 46# _PyObject_MakeTpCall in /usr/bin/python3 201: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 48# 0x000000000050B134 in /usr/bin/python3 201: 49# _PyObject_MakeTpCall in /usr/bin/python3 201: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 51# PyEval_EvalCode in /usr/bin/python3 201: 52# 0x000000000064AE1C in /usr/bin/python3 201: 53# 0x0000000000646A70 in /usr/bin/python3 201: 54# 0x000000000066A1B0 in /usr/bin/python3 201: 55# 0x0000000000669A54 in /usr/bin/python3 201: 56# 0x00000000006697EC in /usr/bin/python3 201: 57# Py_RunMain in /usr/bin/python3 201: 58# Py_BytesMain in /usr/bin/python3 201: 59# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 60# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 61# _start in /usr/bin/python3 201: ---------- 201: **** 201: 203: Pre-condition Violation 203: from must be < size() 203: Violation occurred on line 91 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: from < static_cast(size()) 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 201: ...............[20:41:19] 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. 201: [20:41:19] 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. 201/243 Test #204: pyTestSGroups .......................... Passed 0.21 sec test 205 Start 205: pyTestSCSR 205: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testSCSR.py" 205: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 205: Test timeout computed to be: 1500 201: ..............[20:41:19] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 201: [20:41:19] Explicit valence for atom # 1 C, 5, is greater than permitted 203: .[20:41:19] 203: 203: **** 203: Range Error 203: snapshotNum 203: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: 0 < 0 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 203: 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 203: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 12# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 16# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 21# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 23# _PyObject_MakeTpCall in /usr/bin/python3 203: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 25# 0x000000000053D490 in /usr/bin/python3 203: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 27# 0x0000000000626920 in /usr/bin/python3 203: 28# 0x00000000005AA5E4 in /usr/bin/python3 203: 29# _PyObject_MakeTpCall in /usr/bin/python3 203: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 31# 0x000000000053D490 in /usr/bin/python3 203: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 33# 0x0000000000626920 in /usr/bin/python3 203: 34# 0x00000000005AA5E4 in /usr/bin/python3 203: 35# _PyObject_MakeTpCall in /usr/bin/python3 203: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 37# 0x000000000053D490 in /usr/bin/python3 203: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 39# 0x0000000000626920 in /usr/bin/python3 203: 40# 0x00000000005AA5E4 in /usr/bin/python3 203: 41# _PyObject_MakeTpCall in /usr/bin/python3 203: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 43# 0x000000000050B134 in /usr/bin/python3 203: 44# _PyObject_MakeTpCall in /usr/bin/python3 203: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 46# PyEval_EvalCode in /usr/bin/python3 203: 47# 0x000000000064AE1C in /usr/bin/python3 203: 48# 0x0000000000646A70 in /usr/bin/python3 203: 49# 0x000000000066A1B0 in /usr/bin/python3 203: 50# 0x0000000000669A54 in /usr/bin/python3 203: 51# 0x00000000006697EC in /usr/bin/python3 203: 52# Py_RunMain in /usr/bin/python3 203: 53# Py_BytesMain in /usr/bin/python3 203: 54# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 55# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 56# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: .[20:41:19] 203: 203: **** 203: Pre-condition Violation 203: The trajectory must have dimension == 3 203: Violation occurred on line 113 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: traj.dimension() == 3 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 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.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: ..[20:41:19] 203: 203: **** 203: Pre-condition Violation 203: The trajectory must have dimension == 3 203: Violation occurred on line 154 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: traj.dimension() == 3 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 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.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: .[20:41:19] 203: 203: **** 203: Pre-condition Violation 203: d_pos must not be NULL 203: Violation occurred on line 23 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: d_pos 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: [20:41:19] 203: 203: **** 203: Pre-condition Violation 203: d_trajectory must not be NULL 203: Violation occurred on line 24 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: d_trajectory 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: .[20:41:19] 203: 203: **** 203: Range Error 203: snapshotNum 203: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: 5 < 5 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 203: 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 203: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 12# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 16# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 21# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 23# _PyObject_MakeTpCall in /usr/bin/python3 203: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 25# 0x000000000053D490 in /usr/bin/python3 203: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 27# 0x0000000000626920 in /usr/bin/python3 203: 28# 0x00000000005AA5E4 in /usr/bin/python3 203: 29# _PyObject_MakeTpCall in /usr/bin/python3 203: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 31# 0x000000000053D490 in /usr/bin/python3 203: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 33# 0x0000000000626920 in /usr/bin/python3 203: 34# 0x00000000005AA5E4 in /usr/bin/python3 203: 35# _PyObject_MakeTpCall in /usr/bin/python3 203: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 37# 0x000000000053D490 in /usr/bin/python3 203: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 39# 0x0000000000626920 in /usr/bin/python3 203: 40# 0x00000000005AA5E4 in /usr/bin/python3 203: 41# _PyObject_MakeTpCall in /usr/bin/python3 203: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 43# 0x000000000050B134 in /usr/bin/python3 203: 44# _PyObject_MakeTpCall in /usr/bin/python3 203: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 46# PyEval_EvalCode in /usr/bin/python3 203: 47# 0x000000000064AE1C in /usr/bin/python3 203: 48# 0x0000000000646A70 in /usr/bin/python3 203: 49# 0x000000000066A1B0 in /usr/bin/python3 203: 50# 0x0000000000669A54 in /usr/bin/python3 203: 51# 0x00000000006697EC in /usr/bin/python3 203: 52# Py_RunMain in /usr/bin/python3 203: 53# Py_BytesMain in /usr/bin/python3 203: 54# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 55# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 56# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: [20:41:19] 203: 203: **** 203: Range Error 203: pointNum 203: Violation occurred on line 27 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: 10 < 10 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: .[20:41:19] 203: 203: **** 203: Range Error 203: snapshotNum 203: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: 5 < 5 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdtrajectory.so 203: 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 203: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 12# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 16# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 21# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 23# _PyObject_MakeTpCall in /usr/bin/python3 203: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 25# 0x000000000053D490 in /usr/bin/python3 203: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 27# 0x0000000000626920 in /usr/bin/python3 203: 28# 0x00000000005AA5E4 in /usr/bin/python3 203: 29# _PyObject_MakeTpCall in /usr/bin/python3 203: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 31# 0x000000000053D490 in /usr/bin/python3 203: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 33# 0x0000000000626920 in /usr/bin/python3 203: 34# 0x00000000005AA5E4 in /usr/bin/python3 203: 35# _PyObject_MakeTpCall in /usr/bin/python3 203: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 37# 0x000000000053D490 in /usr/bin/python3 203: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 39# 0x0000000000626920 in /usr/bin/python3 203: 40# 0x00000000005AA5E4 in /usr/bin/python3 203: 41# _PyObject_MakeTpCall in /usr/bin/python3 203: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 43# 0x000000000050B134 in /usr/bin/python3 203: 44# _PyObject_MakeTpCall in /usr/bin/python3 203: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 46# PyEval_EvalCode in /usr/bin/python3 203: 47# 0x000000000064AE1C in /usr/bin/python3 203: 48# 0x0000000000646A70 in /usr/bin/python3 203: 49# 0x000000000066A1B0 in /usr/bin/python3 203: 50# 0x0000000000669A54 in /usr/bin/python3 203: 51# 0x00000000006697EC in /usr/bin/python3 203: 52# Py_RunMain in /usr/bin/python3 203: 53# Py_BytesMain in /usr/bin/python3 203: 54# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 55# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 56# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: [20:41:19] 203: 203: **** 203: Pre-condition Violation 203: d_dimension must be == 2 203: Violation occurred on line 25 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: d_trajectory->dimension() == 2 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: [20:41:19] 203: 203: **** 203: Pre-condition Violation 203: d_dimension must be == 2 203: Violation occurred on line 25 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 203: Failed Expression: d_trajectory->dimension() == 2 203: ---------- 203: Stacktrace: 203: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 203: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitTrajectory.so.1 203: 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 203: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 5# 0x0000FFFFA8242680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 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 203: 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 203: 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 203: 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 203: 11# 0x0000FFFFA6734220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 12# 0x0000FFFFA67341BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 13# 0x0000FFFFA6734158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 14# 0x0000FFFFA67340E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 15# 0x0000FFFFA6734084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 203: 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 203: 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 203: 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 203: 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 203: 20# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 21# 0x0000FFFFA823F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 203: 22# _PyObject_MakeTpCall in /usr/bin/python3 203: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 24# 0x000000000053D490 in /usr/bin/python3 203: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 26# 0x0000000000626920 in /usr/bin/python3 203: 27# 0x00000000005AA5E4 in /usr/bin/python3 203: 28# _PyObject_MakeTpCall in /usr/bin/python3 203: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 30# 0x000000000053D490 in /usr/bin/python3 203: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 32# 0x0000000000626920 in /usr/bin/python3 203: 33# 0x00000000005AA5E4 in /usr/bin/python3 203: 34# _PyObject_MakeTpCall in /usr/bin/python3 203: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 36# 0x000000000053D490 in /usr/bin/python3 203: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 38# 0x0000000000626920 in /usr/bin/python3 203: 39# 0x00000000005AA5E4 in /usr/bin/python3 203: 40# _PyObject_MakeTpCall in /usr/bin/python3 203: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 42# 0x000000000050B134 in /usr/bin/python3 203: 43# _PyObject_MakeTpCall in /usr/bin/python3 203: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 203: 45# PyEval_EvalCode in /usr/bin/python3 203: 46# 0x000000000064AE1C in /usr/bin/python3 203: 47# 0x0000000000646A70 in /usr/bin/python3 203: 48# 0x000000000066A1B0 in /usr/bin/python3 203: 49# 0x0000000000669A54 in /usr/bin/python3 203: 50# 0x00000000006697EC in /usr/bin/python3 203: 51# Py_RunMain in /usr/bin/python3 203: 52# Py_BytesMain in /usr/bin/python3 203: 53# 0x0000FFFFA8A8229C in /lib/aarch64-linux-gnu/libc.so.6 203: 54# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 203: 55# _start in /usr/bin/python3 203: ---------- 203: **** 203: 203: . 203: ---------------------------------------------------------------------- 203: Ran 9 tests in 0.157s 203: 203: OK 203: Testing Trajectory wrapper 202/243 Test #203: pyTestTrajectory ....................... Passed 0.40 sec test 206 Start 206: pyTestThreads 206: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testThreads.py" 206: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 206: Test timeout computed to be: 1500 205: ... 205: ---------------------------------------------------------------------- 205: Ran 3 tests in 0.014s 205: 205: OK 203/243 Test #205: pyTestSCSR ............................. Passed 0.21 sec test 207 Start 207: pyTestMultithreadedMolSupplier 207: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testMultithreadedMolSupplier.py" 207: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 207: Test timeout computed to be: 1500 201: ............................[20:41:19] unable to set wavy bonds for double bonds: 3 201: .............[20:41:19] 201: 201: **** 201: Range Error 201: idx 201: Violation occurred on line 209 in file ./Code/GraphMol/ROMol.cpp 201: Failed Expression: 6 < 5 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 201: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 201: 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 201: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 17# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 21# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 26# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 28# _PyObject_MakeTpCall in /usr/bin/python3 201: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 30# 0x000000000053D490 in /usr/bin/python3 201: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 32# 0x0000000000626920 in /usr/bin/python3 201: 33# 0x00000000005AA5E4 in /usr/bin/python3 201: 34# _PyObject_MakeTpCall in /usr/bin/python3 201: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 36# 0x000000000053D490 in /usr/bin/python3 201: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 38# 0x0000000000626920 in /usr/bin/python3 201: 39# 0x00000000005AA5E4 in /usr/bin/python3 201: 40# _PyObject_MakeTpCall in /usr/bin/python3 201: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 42# 0x000000000053D490 in /usr/bin/python3 201: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 44# 0x0000000000626920 in /usr/bin/python3 201: 45# 0x00000000005AA5E4 in /usr/bin/python3 201: 46# _PyObject_MakeTpCall in /usr/bin/python3 201: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 48# 0x000000000050B134 in /usr/bin/python3 201: 49# _PyObject_MakeTpCall in /usr/bin/python3 201: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 51# PyEval_EvalCode in /usr/bin/python3 201: 52# 0x000000000064AE1C in /usr/bin/python3 201: 53# 0x0000000000646A70 in /usr/bin/python3 201: 54# 0x000000000066A1B0 in /usr/bin/python3 201: 55# 0x0000000000669A54 in /usr/bin/python3 201: 56# 0x00000000006697EC in /usr/bin/python3 201: 57# Py_RunMain in /usr/bin/python3 201: 58# Py_BytesMain in /usr/bin/python3 201: 59# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 60# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 61# _start in /usr/bin/python3 201: ---------- 201: **** 201: 207: .s... 207: ---------------------------------------------------------------------- 207: Ran 5 tests in 0.061s 207: 207: OK (skipped=1) 204/243 Test #207: pyTestMultithreadedMolSupplier ......... Passed 0.27 sec test 208 Start 208: pyTestPropertyLists 208: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/testPropertyLists.py" 208: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 208: Test timeout computed to be: 1500 205/243 Test #206: pyTestThreads .......................... Passed 0.42 sec test 209 Start 209: pyCDXMLTest 209: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Wrap/test_cdxml.py" 209: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Wrap 209: Test timeout computed to be: 1500 208: [20:41:20] Value [?] for property atom.iprop.PartiallyMissingInt of atom 0 can not be parsed. Ignoring it. 208: [20:41:20] Value ? for property atom.iprop.PartiallyMissingInt of atom 3 can not be parsed. Ignoring it. 208: [20:41:20] Value $$$$ for property atom.iprop.PartiallyMissingInt of atom 4 can not be parsed. Ignoring it. 208: .[20:41:20] Value [?] for property atom.iprop.PartiallyMissingInt of atom 0 can not be parsed. Ignoring it. 208: [20:41:20] Value ? for property atom.iprop.PartiallyMissingInt of atom 3 can not be parsed. Ignoring it. 208: [20:41:20] Value $$$$ for property atom.iprop.PartiallyMissingInt of atom 4 can not be parsed. Ignoring it. 208: ...[20:41:20] Value [?] for property atom.iprop.PartiallyMissingInt of atom 0 can not be parsed. Ignoring it. 208: [20:41:20] Value ? for property atom.iprop.PartiallyMissingInt of atom 3 can not be parsed. Ignoring it. 208: [20:41:20] Value $$$$ for property atom.iprop.PartiallyMissingInt of atom 4 can not be parsed. Ignoring it. 208: . 208: ---------------------------------------------------------------------- 208: Ran 5 tests in 0.007s 208: 208: OK 206/243 Test #208: pyTestPropertyLists .................... Passed 0.20 sec test 210 Start 210: molStandardizeTest 210: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeTest 210: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 210: Test timeout computed to be: 1500 209: .. 209: ---------------------------------------------------------------------- 209: Ran 2 tests in 0.000s 209: 209: OK 207/243 Test #209: pyCDXMLTest ............................ Passed 0.23 sec test 211 Start 211: molNormalizeTest 211: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molNormalizeTest 211: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 211: Test timeout computed to be: 1500 211: [20:41:20] Can't kekulize mol. Unkekulized atoms: 3 7 8 9 211: [20:41:20] Initializing Normalizer 211: [20:41:20] Running Normalizer 211: [20:41:20] Rule applied: BrokenazidetoN=N+=N- 211: [20:41:20] Initializing Normalizer 211: [20:41:20] Running Normalizer 211: [20:41:20] Initializing Normalizer 211: [20:41:20] Running Normalizer 208/243 Test #211: molNormalizeTest ....................... Passed 0.08 sec test 212 Start 212: molValidateTest 212: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molValidateTest 212: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 212: Test timeout computed to be: 1500 212: ERROR: [FeaturesValidation] Query atom 0 is not allowed 212: ERROR: [FeaturesValidation] Dummy atom 0 is not allowed 212: ERROR: [FeaturesValidation] Query bond 0 is not allowed 212: ERROR: [FeaturesValidation] Bond 0 of aromatic type is not allowed 212: ERROR: [FeaturesValidation] Bond 1 of aromatic type is not allowed 212: ERROR: [FeaturesValidation] Bond 2 of aromatic type is not allowed 212: ERROR: [FeaturesValidation] Bond 3 of aromatic type is not allowed 212: ERROR: [FeaturesValidation] Bond 5 of aromatic type is not allowed 212: ERROR: [FeaturesValidation] Bond 6 of aromatic type is not allowed 212: ERROR: [FeaturesValidation] Bond 2 of dative type is not allowed 212: ERROR: [FeaturesValidation] Bond 3 of dative type is not allowed 212: ERROR: [FeaturesValidation] Atom 2 with alias 'CF3' is not allowed 212: ERROR: [FeaturesValidation] Enhanced stereochemistry features are not allowed 212: ERROR: [StereoValidation] Atom 3 has both unknown and wedged/dashed stereo bonds. 212: here 212: ERROR: [StereoValidation] Bond 3 has assigned stereo type, but unexpected bond order. 212: there 212: ERROR: [StereoValidation] Atom 0 has stereo bonds, but less than 3 explicit substituents. 209/243 Test #212: molValidateTest ........................ Passed 0.04 sec test 213 Start 213: molChargeTest 213: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molChargeTest 213: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 213: Test timeout computed to be: 1500 210/243 Test #213: molChargeTest .......................... Passed 0.05 sec test 214 Start 214: molTautomerTest 214: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molTautomerTest 214: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 214: Test timeout computed to be: 1500 201: .....................[20:41:20] Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:20] Explicit valence for atom # 6 F, 2, is greater than permitted 201: [20:41:20] Can't kekulize mol. Unkekulized atoms: 3 4 5 201: ..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| 201: CC/C=C/C(/C=C/CC)=C(CC)CO 201: CC/C=C\C(/C=C/CC)=C(CC)CO 201: CC/C=C\C(/C=C/CC)=C(CC)CO 201: CC/C=C\C(/C=C\CC)=C(CC)CO 201: CC/C=C/C(/C=C/CC)=C(CC)CO 201: 2 STEREOE 201: 5 STEREOE 201: CC/C=C\C(/C=C\CC)=C(CC)CO 201: 2 STEREOZ 201: 5 STEREOZ 201: CC/C=C\C(/C=C/CC)=C(CC)CO 201: 2 STEREOZ 201: 5 STEREOE 201: 8 STEREOANY 214: [20:41:20] Tautomer enumeration stopped at 292 tautomers: max transforms reached 211/243 Test #210: molStandardizeTest ..................... Passed 0.61 sec test 215 Start 215: molStandardizeSmallTest 215: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeSmallTest 215: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 215: Test timeout computed to be: 1500 212/243 Test #215: molStandardizeSmallTest ................ Passed 0.03 sec test 216 Start 216: molFragmentTest 216: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molFragmentTest 216: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 216: Test timeout computed to be: 1500 216: [20:41:20] SMARTS Parse Error: syntax error while parsing: [Cl 216: [20:41:20] SMARTS Parse Error: check for mistakes around position 3: 216: [20:41:20] [Cl 216: [20:41:20] ~~^ 216: [20:41:20] SMARTS Parse Error: Failed parsing SMARTS '[Cl' for input: '[Cl' 213/243 Test #216: molFragmentTest ........................ Passed 0.04 sec test 217 Start 217: molStandardizeCatchTest 217: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeCatchTest 217: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 217: Test timeout computed to be: 1500 214: [20:41:20] Tautomer enumeration stopped at 292 tautomers: max transforms reached 217: Randomness seeded to: 212667787 217: * - * - * - * m1 214: [20:41:20] Tautomer enumeration stopped at 50 tautomers: max tautomers reached 217: * - * - * - * m2 217: * - * - * - * m1 217: * - * - * - * m2 217: [20:41:21] Can't kekulize mol. Unkekulized atoms: 3 7 217: [20:41:21] Can't kekulize mol. Unkekulized atoms: 3 8 217: [20:41:21] Can't kekulize mol. Unkekulized atoms: 2 3 4 214: [20:41:21] Tautomer enumeration stopped at 131 tautomers: canceled 214: Enumeration was canceled due to timeout (50 ms) 214: 375 214: Enumeration has completed 214: [20:41:21] Tautomer enumeration stopped at 131 tautomers: canceled 214: CN=c1cc[nH]cn1 214: CN=c1ccnc[nH]1 214: CNc1ccncn1 214: res: CNc1ccncn1 214: CN=c1cccc[nH]1 214: CNc1ccccn1 214: res: CNc1ccccn1 214/243 Test #214: molTautomerTest ........................ Passed 1.48 sec test 218 Start 218: molStandardizePipelineTest 218: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizePipelineTest 218: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize 218: Test timeout computed to be: 1500 218: Randomness seeded to: 3932006219 218: 1 Counts line too short: '' on line4 218: 1 Could not instantiate a valid molecule from input 218: 8 Molecule has no atoms 218: [20:41:21] Explicit valence for atom # 1 N, 4, is greater than permitted 218: [20:41:21] Explicit valence for atom # 1 N, 4, is greater than permitted 218: 8 Explicit valence for atom # 1 N, 4, is greater than permitted 218: 128 An error occurred while preparing the molecule for standardization. 218: 8 The molecule contains an unknown isotope: 3C 218: 4 Query atom 0 is not allowed 201: ..................[20:41:21] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 218: 4 Bond 0 of aromatic type is not allowed 218: 4 Bond 1 of aromatic type is not allowed 218: 4 Bond 2 of aromatic type is not allowed 218: 4 Bond 3 of aromatic type is not allowed 218: 4 Bond 5 of aromatic type is not allowed 218: 4 Bond 6 of aromatic type is not allowed 218: 4 Bond 2 of dative type is not allowed 218: 4 Bond 3 of dative type is not allowed 218: 4 Enhanced stereochemistry features are not allowed 218: 8 The radical at atom 0 is not allowed 218: [20:41:21] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 218: 16 The molecule includes non-null Z coordinates 218: 32 Atom 0 too close to bond 2 218: 32 The length of bond 3 between atoms 0 and 3 exceeds a configured limit 218: 64 Atom 0 has 3 explicit substituents and multiple stereo bonds 218: 64 Atom 0 has adjacent stereo bonds with like orientation 218: [20:41:22] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 218: 16 The molecule includes non-null Z coordinates 218: 64 Atom 0 has adjacent stereo bonds with like orientation 218: 32 The length of bond 16 between atoms 16 and 1 exceeds a configured limit 218: 8388608 One or more metal atoms were disconnected. 218: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 218: 67108864 The protonation state was adjusted. 218: 16777216 The representation of some functional groups was adjusted. 218: 67108864 The protonation state was adjusted. 218: 16777216 The representation of some functional groups was adjusted. 218: 67108864 The protonation state was adjusted. 218: 16777216 The representation of some functional groups was adjusted. 218: 16777216 The representation of some functional groups was adjusted. 218: 67108864 The protonation state was adjusted. 218: 16777216 The representation of some functional groups was adjusted. 218: 67108864 The protonation state was adjusted. 218: 16777216 The representation of some functional groups was adjusted. 218: 67108864 The protonation state was adjusted. 218: 16777216 The representation of some functional groups was adjusted. 218: 67108864 The protonation state was adjusted. 218: 8388608 One or more metal atoms were disconnected. 218: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 218: 67108864 The protonation state was adjusted. 218: 8388608 One or more metal atoms were disconnected. 218: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 218: 67108864 The protonation state was adjusted. 218: 8388608 One or more metal atoms were disconnected. 218: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 218: 67108864 The protonation state was adjusted. 218: 8388608 One or more metal atoms were disconnected. 218: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 218: 67108864 The protonation state was adjusted. 218: 8388608 One or more metal atoms were disconnected. 218: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 218: 67108864 The protonation state was adjusted. 218: 16777216 The "wavy" style of bond 4 was removed 218: 16777216 Double bond 1 was assigned an undefined/unknown stereochemical configuration 218: 16777216 The "wavy" style of bond 2 was removed 218: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 218: 16777216 The "wavy" style of bond 1 was removed 218: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 218: 16777216 The "wavy" style of bond 1 was removed 218: 16777216 The "wavy" style of bond 4 was removed 218: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 218: 16777216 The "wavy" style of bond 3 was removed 218: 16777216 Double bond 1 was assigned an undefined/unknown stereochemical configuration 218: 16777216 The "wavy" style of bond 2 was removed 218: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 218: 16777216 The "wavy" style of bond 1 was removed 218: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 218: 16777216 The "wavy" style of bond 1 was removed 218: 16777216 The "wavy" style of bond 4 was removed 218: 16777216 The "wavy" style of bond 3 was removed 218: 16777216 The representation of some functional groups was adjusted. 218: [20:41:22] Can't kekulize mol. Unkekulized atoms: 2 3 5 218: =============================================================================== 218: All tests passed (318 assertions in 5 test cases) 218: 215/243 Test #218: molStandardizePipelineTest ............. Passed 0.13 sec test 219 Start 219: pyMolStandardize 219: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolStandardize/Wrap/testMolStandardize.py" 219: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap 219: Test timeout computed to be: 1500 219: .....[20:41:22] Tautomer enumeration stopped at 292 tautomers: max transforms reached 219: [20:41:22] Tautomer enumeration stopped at 50 tautomers: max tautomers reached 219: .[20:41:22] Tautomer enumeration stopped at 93 tautomers: canceled 219: Enumeration was canceled due to timeout (50 ms) 219: Enumeration has completed 219: [20:41:23] Tautomer enumeration stopped at 93 tautomers: canceled 219: ..........[20:41:23] Explicit valence for atom # 1 N, 4, is greater than permitted 219: [20:41:23] Explicit valence for atom # 1 N, 4, is greater than permitted 219: [20:41:23] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 219: [20:41:23] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 219: ............[20:41:24] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 219: [20:41:24] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 1 ignored. 219: [20:41:24] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 1 ignored. 219: ........[20:41:24] Explicit valence for atom # 1 O, 3, is greater than permitted 219: .. 219: ---------------------------------------------------------------------- 219: Ran 38 tests in 2.193s 219: 219: OK 219: done 216/243 Test #219: pyMolStandardize ....................... Passed 2.46 sec test 220 Start 220: testScaffoldNetwork 220: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/testScaffoldNetwork 220: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork 220: Test timeout computed to be: 1500 173: =============================================================================== 173: All tests passed (93 assertions in 5 test cases) 173: 217/243 Test #173: testRascalCluster ...................... Passed 27.97 sec test 221 Start 221: pyScaffoldNetwork 221: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/Wrap/testScaffoldNetwork.py" 221: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap 221: Test timeout computed to be: 1500 221: ....... 221: ---------------------------------------------------------------------- 221: Ran 7 tests in 0.023s 221: 221: OK 218/243 Test #221: pyScaffoldNetwork ...................... Passed 0.26 sec test 222 Start 222: pyScaffoldNetworkPickling 222: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/ScaffoldNetwork/Wrap/testPickleScaffoldNetwork.py" 222: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap 222: Test timeout computed to be: 1500 220: Randomness seeded to: 3246383695 220: =============================================================================== 220: All tests passed (273 assertions in 19 test cases) 220: 219/243 Test #220: testScaffoldNetwork .................... Passed 0.66 sec test 223 Start 223: testMolEnumerator 223: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/testMolEnumerator 223: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator 223: Test timeout computed to be: 1500 223: Randomness seeded to: 3241187750 223: [20:41:25] can only enumerate SRUs with CONNECT=HT or CONNECT=HH 223: =============================================================================== 223: All tests passed (321 assertions in 16 test cases) 223: 220/243 Test #223: testMolEnumerator ...................... Passed 0.05 sec test 224 Start 224: pyMolEnumerator 224: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolEnumerator/Wrap/rough_test.py" 224: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap 224: Test timeout computed to be: 1500 222: . 222: ---------------------------------------------------------------------- 222: Ran 1 test in 0.007s 222: 222: OK 221/243 Test #222: pyScaffoldNetworkPickling .............. Passed 0.26 sec test 225 Start 225: testAbbreviations 225: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/testAbbreviations 225: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations 225: Test timeout computed to be: 1500 225: Randomness seeded to: 2701607190 225: [20:41:25] SMARTS Parse Error: syntax error while parsing: *fail 225: [20:41:25] SMARTS Parse Error: check for mistakes around position 2: 225: [20:41:25] *fail 225: [20:41:25] ~^ 225: [20:41:25] SMARTS Parse Error: Failed parsing SMARTS '*fail' for input: '*fail' 225: [20:41:25] no suitable SubstanceGroups found 225: =============================================================================== 225: All tests passed (195 assertions in 12 test cases) 225: 222/243 Test #225: testAbbreviations ...................... Passed 0.03 sec test 226 Start 226: pyAbbreviations 226: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/Abbreviations/Wrap/testAbbreviations.py" 226: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap 226: Test timeout computed to be: 1500 224: ... 224: ---------------------------------------------------------------------- 224: Ran 3 tests in 0.007s 224: 224: OK 223/243 Test #224: pyMolEnumerator ........................ Passed 0.20 sec test 227 Start 227: generalizedSubstructCatch 227: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/generalizedSubstructCatch 227: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct 227: Test timeout computed to be: 1500 226: ....... 226: ---------------------------------------------------------------------- 226: Ran 7 tests in 0.011s 226: 226: OK 224/243 Test #226: pyAbbreviations ........................ Passed 0.20 sec test 228 Start 228: pyGeneralizedSubstruct 228: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/GeneralizedSubstruct/Wrap/testGeneralizedSubstruct.py" 228: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap 228: Test timeout computed to be: 1500 227: Randomness seeded to: 3277626678 227: =============================================================================== 227: All tests passed (486 assertions in 10 test cases) 227: 225/243 Test #227: generalizedSubstructCatch .............. Passed 0.14 sec test 229 Start 229: testMolProcessing 229: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/testMolProcessing 229: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing 229: Test timeout computed to be: 1500 228: ....... 228: ---------------------------------------------------------------------- 228: Ran 7 tests in 0.083s 228: 228: OK 226/243 Test #228: pyGeneralizedSubstruct ................. Passed 0.28 sec test 230 Start 230: pyMolProcessing 230: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolProcessing/Wrap/testMolProcessing.py" 230: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolProcessing/Wrap 230: Test timeout computed to be: 1500 230: .. 230: ---------------------------------------------------------------------- 230: Ran 2 tests in 0.140s 230: 230: OK 227/243 Test #230: pyMolProcessing ........................ Passed 0.34 sec test 231 Start 231: testMIF 231: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/testMIF 231: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields 231: Test timeout computed to be: 1500 231: Randomness seeded to: 2129000056 231: =============================================================================== 231: All tests passed (27926 assertions in 8 test cases) 231: 228/243 Test #231: testMIF ................................ Passed 0.05 sec test 232 Start 232: pyMIF 232: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/GraphMol/MolInteractionFields/Wrap/testMIF.py" 232: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap 232: Test timeout computed to be: 1500 232: ....... 232: ---------------------------------------------------------------------- 232: Ran 7 tests in 0.040s 232: 232: OK 232: Testing MIF wrapper 229/243 Test #232: pyMIF .................................. Passed 0.27 sec test 233 Start 233: testQuery 233: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Query/testQuery 233: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Query 233: Test timeout computed to be: 1500 233: Randomness seeded to: 2699439933 233: =============================================================================== 233: All tests passed (111 assertions in 16 test cases) 233: 230/243 Test #233: testQuery .............................. Passed 0.01 sec test 234 Start 234: testBaseFeatures 234: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Features/testBaseFeatures 234: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/Features 234: Test timeout computed to be: 1500 234: Randomness seeded to: 1226097759 234: =============================================================================== 234: All tests passed (61 assertions in 3 test cases) 234: 231/243 Test #234: testBaseFeatures ....................... Passed 0.01 sec test 235 Start 235: testMatCalc 235: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/testMatCalc 235: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc 235: Test timeout computed to be: 1500 235: 1.68022e+08 235: 1.73149e+08 235: 1.05549e+08 235: 7.20603e+07 235: 1.41535e+08 235: 1.08592e+08 235: 1.11334e+08 235: 2.05553e+08 235: 1.54962e+08 235: 8.08231e+07 235: 5.61421e+07 235: 1.28874e+08 235: 1.59011e+08 235: 8.69902e+07 235: 1.31367e+08 235: 2.27389e+08 235: 1.60289e+08 235: 7.79813e+07 235: 1.61001e+08 235: 2.07599e+08 235: 2.24432e+08 235: 1.39725e+08 235: 2.42614e+08 235: 1.77578e+08 235: 1.05908e+08 235: 9.06742e+07 235: 1.8087e+08 235: 1.98182e+08 235: 2.03052e+08 235: 1.7673e+08 235: 9.32798e+07 235: 1.37969e+08 235: 1.83778e+08 235: 2.1228e+08 235: 5.06157e+07 235: 1.566e+08 235: 2.37142e+08 235: 1.49345e+08 235: 7.05819e+07 235: 1.71633e+08 235: 1.96817e+08 235: 2.18246e+08 235: 9.49496e+07 235: 2.25618e+08 235: 1.30219e+08 232/243 Test #235: testMatCalc ............................ Passed 0.00 sec test 236 Start 236: pyMatCalc 236: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/DataManip/MetricMatrixCalc/Wrap/testMatricCalc.py" 236: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap 236: Test timeout computed to be: 1500 201: ..[20:41:26] 201: 201: **** 201: Pre-condition Violation 201: no owner 201: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 201: Failed Expression: dp_mol 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 5# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 16# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 17# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 25# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 26# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# _PyObject_MakeTpCall in /usr/bin/python3 201: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 29# 0x000000000053D490 in /usr/bin/python3 201: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 31# 0x0000000000626920 in /usr/bin/python3 201: 32# 0x00000000005AA5E4 in /usr/bin/python3 201: 33# _PyObject_MakeTpCall in /usr/bin/python3 201: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 35# 0x000000000053D490 in /usr/bin/python3 201: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 37# 0x0000000000626920 in /usr/bin/python3 201: 38# 0x00000000005AA5E4 in /usr/bin/python3 201: 39# _PyObject_MakeTpCall in /usr/bin/python3 201: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 41# 0x000000000053D490 in /usr/bin/python3 201: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 43# 0x0000000000626920 in /usr/bin/python3 201: 44# 0x00000000005AA5E4 in /usr/bin/python3 201: 45# _PyObject_MakeTpCall in /usr/bin/python3 201: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 47# 0x000000000050B134 in /usr/bin/python3 201: 48# _PyObject_MakeTpCall in /usr/bin/python3 201: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 50# PyEval_EvalCode in /usr/bin/python3 201: 51# 0x000000000064AE1C in /usr/bin/python3 201: 52# 0x0000000000646A70 in /usr/bin/python3 201: 53# 0x000000000066A1B0 in /usr/bin/python3 201: 54# 0x0000000000669A54 in /usr/bin/python3 201: 55# 0x00000000006697EC in /usr/bin/python3 201: 56# Py_RunMain in /usr/bin/python3 201: 57# Py_BytesMain in /usr/bin/python3 201: 58# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 59# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 60# _start in /usr/bin/python3 201: ---------- 201: **** 201: 201: [20:41:26] 201: 201: **** 201: Pre-condition Violation 201: no owner 201: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 201: Failed Expression: dp_mol 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 3# RDKit::AtomGetNeighbors(RDKit::Atom*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 17# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 21# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 26# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 28# _PyObject_MakeTpCall in /usr/bin/python3 201: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 30# 0x000000000053D490 in /usr/bin/python3 201: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 32# 0x0000000000626920 in /usr/bin/python3 201: 33# 0x00000000005AA5E4 in /usr/bin/python3 201: 34# _PyObject_MakeTpCall in /usr/bin/python3 201: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 36# 0x000000000053D490 in /usr/bin/python3 201: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 38# 0x0000000000626920 in /usr/bin/python3 201: 39# 0x00000000005AA5E4 in /usr/bin/python3 201: 40# _PyObject_MakeTpCall in /usr/bin/python3 201: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 42# 0x000000000053D490 in /usr/bin/python3 201: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 44# 0x0000000000626920 in /usr/bin/python3 201: 45# 0x00000000005AA5E4 in /usr/bin/python3 201: 46# _PyObject_MakeTpCall in /usr/bin/python3 201: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 48# 0x000000000050B134 in /usr/bin/python3 201: 49# _PyObject_MakeTpCall in /usr/bin/python3 201: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 51# PyEval_EvalCode in /usr/bin/python3 201: 52# 0x000000000064AE1C in /usr/bin/python3 201: 53# 0x0000000000646A70 in /usr/bin/python3 201: 54# 0x000000000066A1B0 in /usr/bin/python3 201: 55# 0x0000000000669A54 in /usr/bin/python3 201: 56# 0x00000000006697EC in /usr/bin/python3 201: 57# Py_RunMain in /usr/bin/python3 201: 58# Py_BytesMain in /usr/bin/python3 201: 59# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 60# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 61# _start in /usr/bin/python3 201: ---------- 201: **** 201: 201: [20:41:26] 201: 201: **** 201: Pre-condition Violation 201: no owner 201: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 201: Failed Expression: dp_mol 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 3# RDKit::AtomGetBonds(RDKit::Atom*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 17# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 21# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 26# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 28# _PyObject_MakeTpCall in /usr/bin/python3 201: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 30# 0x000000000053D490 in /usr/bin/python3 201: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 32# 0x0000000000626920 in /usr/bin/python3 201: 33# 0x00000000005AA5E4 in /usr/bin/python3 201: 34# _PyObject_MakeTpCall in /usr/bin/python3 201: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 36# 0x000000000053D490 in /usr/bin/python3 201: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 38# 0x0000000000626920 in /usr/bin/python3 201: 39# 0x00000000005AA5E4 in /usr/bin/python3 201: 40# _PyObject_MakeTpCall in /usr/bin/python3 201: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 42# 0x000000000053D490 in /usr/bin/python3 201: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 44# 0x0000000000626920 in /usr/bin/python3 201: 45# 0x00000000005AA5E4 in /usr/bin/python3 201: 46# _PyObject_MakeTpCall in /usr/bin/python3 201: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 48# 0x000000000050B134 in /usr/bin/python3 201: 49# _PyObject_MakeTpCall in /usr/bin/python3 201: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 51# PyEval_EvalCode in /usr/bin/python3 201: 52# 0x000000000064AE1C in /usr/bin/python3 201: 53# 0x0000000000646A70 in /usr/bin/python3 201: 54# 0x000000000066A1B0 in /usr/bin/python3 201: 55# 0x0000000000669A54 in /usr/bin/python3 201: 56# 0x00000000006697EC in /usr/bin/python3 201: 57# Py_RunMain in /usr/bin/python3 201: 58# Py_BytesMain in /usr/bin/python3 201: 59# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 60# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 61# _start in /usr/bin/python3 201: ---------- 201: **** 201: 201: [20:41:26] 201: 201: **** 201: Pre-condition Violation 201: no owner 201: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 201: Failed Expression: dp_mol 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 3# RDKit::AtomIsInRing(RDKit::Atom const*) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 17# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 21# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 26# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 28# _PyObject_MakeTpCall in /usr/bin/python3 201: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 30# 0x000000000053D490 in /usr/bin/python3 201: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 32# 0x0000000000626920 in /usr/bin/python3 201: 33# 0x00000000005AA5E4 in /usr/bin/python3 201: 34# _PyObject_MakeTpCall in /usr/bin/python3 201: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 36# 0x000000000053D490 in /usr/bin/python3 201: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 38# 0x0000000000626920 in /usr/bin/python3 201: 39# 0x00000000005AA5E4 in /usr/bin/python3 201: 40# _PyObject_MakeTpCall in /usr/bin/python3 201: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 42# 0x000000000053D490 in /usr/bin/python3 201: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 44# 0x0000000000626920 in /usr/bin/python3 201: 45# 0x00000000005AA5E4 in /usr/bin/python3 201: 46# _PyObject_MakeTpCall in /usr/bin/python3 201: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 48# 0x000000000050B134 in /usr/bin/python3 201: 49# _PyObject_MakeTpCall in /usr/bin/python3 201: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 51# PyEval_EvalCode in /usr/bin/python3 201: 52# 0x000000000064AE1C in /usr/bin/python3 201: 53# 0x0000000000646A70 in /usr/bin/python3 201: 54# 0x000000000066A1B0 in /usr/bin/python3 201: 55# 0x0000000000669A54 in /usr/bin/python3 201: 56# 0x00000000006697EC in /usr/bin/python3 201: 57# Py_RunMain in /usr/bin/python3 201: 58# Py_BytesMain in /usr/bin/python3 201: 59# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 60# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 61# _start in /usr/bin/python3 201: ---------- 201: **** 201: 201: [20:41:26] 201: 201: **** 201: Pre-condition Violation 201: no owner 201: Violation occurred on line 153 in file ./Code/GraphMol/Atom.h 201: Failed Expression: dp_mol 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 3# RDKit::AtomIsInRingSize(RDKit::Atom const*, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 17# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 21# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 26# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 28# _PyObject_MakeTpCall in /usr/bin/python3 201: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 30# 0x000000000053D490 in /usr/bin/python3 201: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 32# 0x0000000000626920 in /usr/bin/python3 201: 33# 0x00000000005AA5E4 in /usr/bin/python3 201: 34# _PyObject_MakeTpCall in /usr/bin/python3 201: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 36# 0x000000000053D490 in /usr/bin/python3 201: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 38# 0x0000000000626920 in /usr/bin/python3 201: 39# 0x00000000005AA5E4 in /usr/bin/python3 201: 40# _PyObject_MakeTpCall in /usr/bin/python3 201: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 42# 0x000000000053D490 in /usr/bin/python3 201: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 44# 0x0000000000626920 in /usr/bin/python3 201: 45# 0x00000000005AA5E4 in /usr/bin/python3 201: 46# _PyObject_MakeTpCall in /usr/bin/python3 201: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 48# 0x000000000050B134 in /usr/bin/python3 201: 49# _PyObject_MakeTpCall in /usr/bin/python3 201: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 51# PyEval_EvalCode in /usr/bin/python3 201: 52# 0x000000000064AE1C in /usr/bin/python3 201: 53# 0x0000000000646A70 in /usr/bin/python3 201: 54# 0x000000000066A1B0 in /usr/bin/python3 201: 55# 0x0000000000669A54 in /usr/bin/python3 201: 56# 0x00000000006697EC in /usr/bin/python3 201: 57# Py_RunMain in /usr/bin/python3 201: 58# Py_BytesMain in /usr/bin/python3 201: 59# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 60# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 61# _start in /usr/bin/python3 201: ---------- 201: **** 201: 201: .....[20:41:26] 201: 201: **** 201: Range Error 201: atomIdx1 201: Violation occurred on line 503 in file ./Code/GraphMol/RWMol.cpp 201: Failed Expression: 0 < 0 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 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.1 201: 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 201: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 5# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 16# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 17# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 25# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 26# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# _PyObject_MakeTpCall in /usr/bin/python3 201: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 29# 0x000000000053D490 in /usr/bin/python3 201: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 31# 0x0000000000626920 in /usr/bin/python3 201: 32# 0x00000000005AA5E4 in /usr/bin/python3 201: 33# _PyObject_MakeTpCall in /usr/bin/python3 201: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 35# 0x000000000053D490 in /usr/bin/python3 201: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 37# 0x0000000000626920 in /usr/bin/python3 201: 38# 0x00000000005AA5E4 in /usr/bin/python3 201: 39# _PyObject_MakeTpCall in /usr/bin/python3 201: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 41# 0x000000000053D490 in /usr/bin/python3 201: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 43# 0x0000000000626920 in /usr/bin/python3 201: 44# 0x00000000005AA5E4 in /usr/bin/python3 201: 45# _PyObject_MakeTpCall in /usr/bin/python3 201: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 47# 0x000000000050B134 in /usr/bin/python3 201: 48# _PyObject_MakeTpCall in /usr/bin/python3 201: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 50# PyEval_EvalCode in /usr/bin/python3 201: 51# 0x000000000064AE1C in /usr/bin/python3 201: 52# 0x0000000000646A70 in /usr/bin/python3 201: 53# 0x000000000066A1B0 in /usr/bin/python3 201: 54# 0x0000000000669A54 in /usr/bin/python3 201: 55# 0x00000000006697EC in /usr/bin/python3 201: 56# Py_RunMain in /usr/bin/python3 201: 57# Py_BytesMain in /usr/bin/python3 201: 58# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 59# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 60# _start in /usr/bin/python3 201: ---------- 201: **** 201: 201: ......[20:41:26] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 201: [20:41:26] ERROR: Smiles parse error on line 0 201: [20:41:26] ERROR: Cannot create molecule from : 'c1ccccc' 201: [20:41:26] SMILES Parse Error: extra open parentheses while parsing: C(C 201: [20:41:26] SMILES Parse Error: check for mistakes around position 2: 201: [20:41:26] C(C 201: [20:41:26] ~^ 201: [20:41:26] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 201: [20:41:26] ERROR: Smiles parse error on line 3 201: [20:41:26] ERROR: Cannot create molecule from : 'C(C' 201: [20:41:26] Explicit valence for atom # 1 C, 5, is greater than permitted 201: [20:41:26] ERROR: Could not sanitize molecule on line 6 201: [20:41:26] ERROR: Explicit valence for atom # 1 C, 5, is greater than permitted 201: [20:41:26] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 201: [20:41:26] ERROR: Smiles parse error on line 0 201: [20:41:26] ERROR: Cannot create molecule from : 'c1ccccc' 201: [20:41:26] SMILES Parse Error: extra open parentheses while parsing: C(C 201: [20:41:26] SMILES Parse Error: check for mistakes around position 2: 201: [20:41:26] C(C 201: [20:41:26] ~^ 201: [20:41:26] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 201: [20:41:26] ERROR: Smiles parse error on line 3 201: [20:41:26] ERROR: Cannot create molecule from : 'C(C' 201: [20:41:26] SMILES Parse Error: unclosed ring for input: 'C1C(Cl)CCCC' 201: [20:41:26] ERROR: Smiles parse error on line 6 201: [20:41:26] ERROR: Cannot create molecule from : 'C1C(Cl)CCCC' 201: [20:41:26] Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] ERROR: Could not sanitize molecule ending on line 21 201: [20:41:26] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] ERROR: EOF hit while reading atoms 201: [20:41:26] ERROR: moving to the beginning of the next molecule 201: [20:41:26] Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] ERROR: Could not sanitize molecule ending on line 21 201: [20:41:26] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] ERROR: EOF hit while reading atoms 201: [20:41:26] ERROR: moving to the beginning of the next molecule 201: ....[20:41:26] 201: 201: **** 201: Pre-condition Violation 201: RingInfo not initialized 201: Violation occurred on line 170 in file ./Code/GraphMol/RingInfo.cpp 201: Failed Expression: df_init 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::RingInfo::numRings() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 201: 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 201: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 5# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 16# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 17# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 25# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 26# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# _PyObject_MakeTpCall in /usr/bin/python3 201: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 29# 0x000000000053D490 in /usr/bin/python3 201: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 31# 0x0000000000626920 in /usr/bin/python3 201: 32# 0x00000000005AA5E4 in /usr/bin/python3 201: 33# _PyObject_MakeTpCall in /usr/bin/python3 201: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 35# 0x000000000053D490 in /usr/bin/python3 201: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 37# 0x0000000000626920 in /usr/bin/python3 201: 38# 0x00000000005AA5E4 in /usr/bin/python3 201: 39# _PyObject_MakeTpCall in /usr/bin/python3 201: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 41# 0x000000000053D490 in /usr/bin/python3 201: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 43# 0x0000000000626920 in /usr/bin/python3 201: 44# 0x00000000005AA5E4 in /usr/bin/python3 201: 45# _PyObject_MakeTpCall in /usr/bin/python3 201: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 47# 0x000000000050B134 in /usr/bin/python3 201: 48# _PyObject_MakeTpCall in /usr/bin/python3 201: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 50# PyEval_EvalCode in /usr/bin/python3 201: 51# 0x000000000064AE1C in /usr/bin/python3 201: 52# 0x0000000000646A70 in /usr/bin/python3 201: 53# 0x000000000066A1B0 in /usr/bin/python3 201: 54# 0x0000000000669A54 in /usr/bin/python3 201: 55# 0x00000000006697EC in /usr/bin/python3 201: 56# Py_RunMain in /usr/bin/python3 201: 57# Py_BytesMain in /usr/bin/python3 201: 58# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 59# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 60# _start in /usr/bin/python3 201: ---------- 201: **** 201: 201: ..............[20:41:26] 201: 201: **** 201: Range Error 201: idx 201: Violation occurred on line 209 in file ./Code/GraphMol/ROMol.cpp 201: Failed Expression: 3 < 1 201: ---------- 201: Stacktrace: 201: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 201: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitGraphMol.so.1 201: 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 201: 4# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 5# 0x0000FFFFA55C2680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 6# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 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 201: 16# 0x0000FFFFA3974220 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 17# 0x0000FFFFA39741BC in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 18# 0x0000FFFFA3974158 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 19# 0x0000FFFFA39740E8 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 20# 0x0000FFFFA3974084 in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/Chem/rdchem.so 201: 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 201: 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 201: 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 201: 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 201: 25# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 26# 0x0000FFFFA55BF25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 201: 27# _PyObject_MakeTpCall in /usr/bin/python3 201: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 29# 0x000000000053D490 in /usr/bin/python3 201: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 31# 0x0000000000626920 in /usr/bin/python3 201: 32# 0x00000000005AA5E4 in /usr/bin/python3 201: 33# _PyObject_MakeTpCall in /usr/bin/python3 201: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 35# 0x000000000053D490 in /usr/bin/python3 201: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 37# 0x0000000000626920 in /usr/bin/python3 201: 38# 0x00000000005AA5E4 in /usr/bin/python3 201: 39# _PyObject_MakeTpCall in /usr/bin/python3 201: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 41# 0x000000000053D490 in /usr/bin/python3 201: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 43# 0x0000000000626920 in /usr/bin/python3 201: 44# 0x00000000005AA5E4 in /usr/bin/python3 201: 45# _PyObject_MakeTpCall in /usr/bin/python3 201: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 47# 0x000000000050B134 in /usr/bin/python3 201: 48# _PyObject_MakeTpCall in /usr/bin/python3 201: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 201: 50# PyEval_EvalCode in /usr/bin/python3 201: 51# 0x000000000064AE1C in /usr/bin/python3 201: 52# 0x0000000000646A70 in /usr/bin/python3 201: 53# 0x000000000066A1B0 in /usr/bin/python3 201: 54# 0x0000000000669A54 in /usr/bin/python3 201: 55# 0x00000000006697EC in /usr/bin/python3 201: 56# Py_RunMain in /usr/bin/python3 201: 57# Py_BytesMain in /usr/bin/python3 201: 58# 0x0000FFFFA62B229C in /lib/aarch64-linux-gnu/libc.so.6 201: 59# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 201: 60# _start in /usr/bin/python3 201: ---------- 201: **** 201: 201: ...[20:41:26] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 201: ............................[20:41:26] SMILES Parse Error: unclosed ring for input: 'C1CC' 201: ......863 201: ..[20:41:26] WARNING: not removing hydrogen atom without neighbors 201: [20:41:26] WARNING: not removing hydrogen atom with dummy atom neighbors 201: [20:41:26] WARNING: not removing hydrogen atom with wedged bond 201: [20:41:26] WARNING: not removing hydrogen atom without neighbors 201: [20:41:26] WARNING: not removing hydrogen atom with dummy atom neighbors 229: Randomness seeded to: 521767434 229: =============================================================================== 229: All tests passed (203 assertions in 1 test case) 229: 233/243 Test #229: testMolProcessing ...................... Passed 1.12 sec test 237 Start 237: testSimDivPickers 237: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/testSimDivPickers 237: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers 237: Test timeout computed to be: 1500 237: Randomness seeded to: 317063581 237: =============================================================================== 237: All tests passed (13 assertions in 2 test cases) 237: 234/243 Test #237: testSimDivPickers ...................... Passed 0.01 sec test 238 Start 238: pickersTestsCatch 238: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/pickersTestsCatch 238: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers 238: Test timeout computed to be: 1500 238: Randomness seeded to: 1886422274 238: =============================================================================== 238: All tests passed (21267 assertions in 1 test case) 238: 235/243 Test #238: pickersTestsCatch ...................... Passed 0.05 sec test 239 Start 239: pySimDivPickers 239: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/SimDivPickers/Wrap/testPickers.py" 239: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap 239: Test timeout computed to be: 1500 201: ......[20:41:26] Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] Can't kekulize mol. Unkekulized atoms: 0 1 2 201: .[20:41:26] Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] Explicit valence for atom # 1 F, 2, is greater than permitted 201: [20:41:26] Can't kekulize mol. Unkekulized atoms: 0 1 2 201: [20:41:26] Can't kekulize mol. Unkekulized atoms: 0 1 2 201: [20:41:26] Can't kekulize mol. Unkekulized atoms: 0 1 2 201: ..........[20:41:26] SMARTS Parse Error: syntax error while parsing: CCC |$foo;;bar$| ourname 201: [20:41:26] SMARTS Parse Error: check for mistakes around position 4: 201: [20:41:26] CCC |$foo;;bar$| ourname 201: [20:41:26] ~~~^ 201: [20:41:26] SMARTS Parse Error: Failed parsing SMARTS 'CCC |$foo;;bar$| ourname' for input: 'CCC |$foo;;bar$| ourname' 201: .[20:41:26] SMILES Parse Error: syntax error while parsing: CCC |$foo;;bar$| ourname 201: [20:41:26] SMILES Parse Error: check for mistakes around position 4: 201: [20:41:26] CCC |$foo;;bar$| ourname 201: [20:41:26] ~~~^ 201: [20:41:26] SMILES Parse Error: Failed parsing SMILES 'CCC |$foo;;bar$| ourname' for input: 'CCC |$foo;;bar$| ourname' 201: ..[20:41:26] SMILES Parse Error: syntax error while parsing: error 201: [20:41:26] SMILES Parse Error: check for mistakes around position 1: 201: [20:41:26] error 201: [20:41:26] ^ 201: [20:41:26] SMILES Parse Error: Failed parsing SMILES 'error' for input: 'error' 201: [20:41:26] SMILES Parse Error: Failed parsing SMILES 'd' for input: 'd' 201: [20:41:26] SMARTS Parse Error: Failed parsing SMARTS 'error' for input: 'error' 201: [20:41:26] SMARTS Parse Error: Failed parsing SMARTS 'd' for input: 'd' 201: .........................[20:41:26] SMILES Parse Error: syntax error while parsing: garbage_0 201: [20:41:26] SMILES Parse Error: check for mistakes around position 1: 201: [20:41:26] garbage_0 201: [20:41:26] ^ 201: [20:41:26] SMILES Parse Error: Failed parsing SMILES 'garbage_0' for input: 'garbage_0' 201: [20:41:26] SMILES Parse Error: syntax error while parsing: garbage_2 201: [20:41:26] SMILES Parse Error: check for mistakes around position 1: 201: [20:41:26] garbage_2 201: [20:41:26] ^ 201: [20:41:26] SMILES Parse Error: Failed parsing SMILES 'garbage_2' for input: 'garbage_2' 201: [20:41:26] SMILES Parse Error: syntax error while parsing: garbage_4 201: [20:41:26] SMILES Parse Error: check for mistakes around position 1: 201: [20:41:26] garbage_4 201: [20:41:26] ^ 201: [20:41:26] SMILES Parse Error: Failed parsing SMILES 'garbage_4' for input: 'garbage_4' 201: ............ 201: ---------------------------------------------------------------------- 201: Ran 284 tests in 7.501s 201: 201: OK 201: supplier: 201: supplier: 201: supplier: 236: ..... 236: ---------------------------------------------------------------------- 236: Ran 5 tests in 0.179s 236: 236: OK 239: [20:41:26] the useCache argument is deprecated and ignored 236/243 Test #201: pyGraphMolWrap ......................... Passed 7.88 sec test 240 Start 240: pyRanker 240: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/ML/InfoTheory/Wrap/testRanker.py" 240: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap 240: Test timeout computed to be: 1500 237/243 Test #236: pyMatCalc .............................. Passed 0.38 sec test 241 Start 241: testChemicalFeatures 241: Test command: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/testChemicalFeatures 241: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures 241: Test timeout computed to be: 1500 241: Randomness seeded to: 931144544 241: =============================================================================== 241: All tests passed (24 assertions in 1 test case) 241: 238/243 Test #241: testChemicalFeatures ................... Passed 0.01 sec test 242 Start 242: pyFeatures 242: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202503.6/Code/ChemicalFeatures/Wrap/testFeatures.py" 242: Working Directory: /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap 242: Test timeout computed to be: 1500 239: ...[20:41:27] the useCache argument is deprecated and ignored 239: [20:41:27] the useCache argument is deprecated and ignored 239: .[20:41:27] the useCache argument is deprecated and ignored 240: ..[20:41:27] 240: 240: **** 240: Invariant Violation 240: Can't rank more bits than the ensemble size 240: Violation occurred on line 156 in file ./Code/ML/InfoTheory/InfoBitRanker.cpp 240: Failed Expression: num <= dp_maskBits->getNumOnBits() 240: ---------- 240: Stacktrace: 240: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 240: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitRDGeneral.so.1 240: 2# RDInfoTheory::InfoBitRanker::getTopN(unsigned int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu//lib/libRDKitInfoTheory.so.1 240: 3# RDInfoTheory::getTopNbits(RDInfoTheory::InfoBitRanker*, int) in /build/reproducible-path/rdkit-202503.6/obj-aarch64-linux-gnu/rdkit/ML/InfoTheory/rdInfoTheory.so 240: 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 240: 5# boost::python::objects::function::call(_object*, _object*) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 240: 6# 0x0000FFFF92F92680 in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 240: 7# boost::python::detail::exception_handler::operator()(boost::function0 const&) const in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 240: 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 240: 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 240: 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 240: 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 240: 12# boost::python::handle_exception_impl(boost::function0) in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 240: 13# 0x0000FFFF92F8F25C in /lib/aarch64-linux-gnu/libboost_python313.so.1.83.0 240: 14# _PyObject_MakeTpCall in /usr/bin/python3 240: 15# _PyEval_EvalFrameDefault in /usr/bin/python3 240: 16# 0x000000000053D490 in /usr/bin/python3 240: 17# _PyEval_EvalFrameDefault in /usr/bin/python3 240: 18# 0x0000000000626920 in /usr/bin/python3 240: 19# 0x00000000005AA5E4 in /usr/bin/python3 240: 20# _PyObject_MakeTpCall in /usr/bin/python3 240: 21# _PyEval_EvalFrameDefault in /usr/bin/python3 240: 22# 0x000000000053D490 in /usr/bin/python3 240: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 240: 24# 0x0000000000626920 in /usr/bin/python3 240: 25# 0x00000000005AA5E4 in /usr/bin/python3 240: 26# _PyObject_MakeTpCall in /usr/bin/python3 240: 27# _PyEval_EvalFrameDefault in /usr/bin/python3 240: 28# 0x000000000053D490 in /usr/bin/python3 240: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 240: 30# 0x0000000000626920 in /usr/bin/python3 240: 31# 0x00000000005AA5E4 in /usr/bin/python3 240: 32# _PyObject_MakeTpCall in /usr/bin/python3 240: 33# _PyEval_EvalFrameDefault in /usr/bin/python3 240: 34# 0x000000000050B134 in /usr/bin/python3 240: 35# _PyObject_MakeTpCall in /usr/bin/python3 240: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 240: 37# PyEval_EvalCode in /usr/bin/python3 240: 38# 0x000000000064AE1C in /usr/bin/python3 240: 39# 0x0000000000646A70 in /usr/bin/python3 240: 40# 0x000000000066A1B0 in /usr/bin/python3 240: 41# 0x0000000000669A54 in /usr/bin/python3 240: 42# 0x00000000006697EC in /usr/bin/python3 240: 43# Py_RunMain in /usr/bin/python3 240: 44# Py_BytesMain in /usr/bin/python3 240: 45# 0x0000FFFF949D229C in /lib/aarch64-linux-gnu/libc.so.6 240: 46# __libc_start_main in /lib/aarch64-linux-gnu/libc.so.6 240: 47# _start in /usr/bin/python3 240: ---------- 240: **** 240: 240: ... 240: ---------------------------------------------------------------------- 240: Ran 5 tests in 0.013s 240: 240: OK 239/243 Test #240: pyRanker ............................... Passed 0.19 sec test 243 Start 243: pythonProjectTests 243: Test command: /usr/bin/python3 "-m" "pytest" 243: Working Directory: /build/reproducible-path/rdkit-202503.6/Projects 243: Test timeout computed to be: 1500 242: .. 242: ---------------------------------------------------------------------- 242: Ran 2 tests in 0.001s 242: 242: OK 242: Testing ChemicalFeatures Wrapper code: 240/243 Test #242: pyFeatures ............................. Passed 0.24 sec 239: ....... 239: ---------------------------------------------------------------------- 239: Ran 11 tests in 0.698s 239: 239: OK 241/243 Test #239: pySimDivPickers ........................ Passed 0.87 sec 243: ============================= test session starts ============================== 243: platform linux -- Python 3.13.7, pytest-8.4.2, pluggy-1.6.0 243: rootdir: /build/reproducible-path/rdkit-202503.6/Projects 243: configfile: pytest.ini 243: collected 12 items 243: 217: [20:41:29] Explicit valence for atom # 0 Br, 1, is greater than permitted 217: =============================================================================== 217: All tests passed (38344 assertions in 51 test cases) 217: 242/243 Test #217: molStandardizeCatchTest ................ Passed 8.96 sec 243: DbCLI/UnitTestDbCLI.py ............ [100%] 243: 243: =============================== warnings summary =============================== 243: ../obj-aarch64-linux-gnu/rdkit/Chem/MolDb/Loader_sa.py:20 243: /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) 243: decBase = declarative_base() 243: 243: -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 243: ======================== 12 passed, 1 warning in 15.06s ======================== 243/243 Test #243: pythonProjectTests ..................... Passed 15.66 sec 100% tests passed, 0 tests failed out of 243 Total Test time (real) = 97.62 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 -j4 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: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Descriptors3D.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/FunctionalGroups.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm2D -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm2D/Utils.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm2D/SigFactory.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm2D/Gobbi_Pharm2D.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm2D/Matcher.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm2D/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm2D/Generate.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm2D/LazyGenerator.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Fragments.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/PandasPatcher.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/QED.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolStandardize -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/MolStandardize/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/PyMol.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/DSViewer.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/BRICS.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/fmcs -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/fmcs/fmcs.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/fmcs/fmcs -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/fmcs/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/RegistrationHash.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm3D -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm3D/ExcludedVolume.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm3D/EmbedLib.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm3D/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Pharm3D/Pharmacophore.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/AllChem.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/TorsionFingerprints.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/GraphDescriptors.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/EState -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/EState/EState.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/EState/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/EState/EState_VSA.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/EState/AtomTypes.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/EState/Fingerprinter.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/PropertyMol.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/BuildFragmentCatalog.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/SaltRemover.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Crippen.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Fingerprints -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Fingerprints/FingerprintMols.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Fingerprints/DbFpSupplier.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Fingerprints/SimilarityScreener.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Fingerprints/ClusterMols.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Fingerprints/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/Fingerprints/MolSimilarity.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/Chem/FilterCatalog.py -- 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: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-18.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-24.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/metrics.dat -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-8.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-12.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-8.pbm -- Installing: /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: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-14.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-8.pil.1 -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-8.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/times-12.pil -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pbm -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PIL/pilfonts/symbol-8.pil -- Installing: /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/lib/python3.13/site-packages/rdkit/sping/PDF/pdfgeom.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PDF/pdfdoc.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PDF/pdfgen.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PDF/pdfutils.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PDF/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PDF/pidPDF.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PDF/pdfmetrics.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/tests -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/tests/pidtest.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/tests/pstests.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/tests/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/tests/testallps.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/Qt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/Qt/pidQt4.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/Qt/pidQt.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/Qt/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/examples -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/examples/formatted-strings.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/examples/tkCanvasPIL-with-scrollbars.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/examples/tkCanvas-with-scrollbars.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/README -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/utils.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/Pyart -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/Pyart/pidPyart.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/Pyart/Fontmapping.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/Pyart/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PS -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PS/fontinfo.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PS/latin1MetricsCache.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PS/psmetrics.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PS/pidPS.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/sping/PS/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/pytest.ini -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/conftest.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/Transform.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/Supply.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/SmartsRemover.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/SmilesDupeFilter.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/SDSupply.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/__init__.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/DbPickleSupplier.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/SmartsMolFilter.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/SmilesSupply.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/DbMolSupply.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/demo.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/NodeLib/SmilesOutput.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/Filter.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/Node.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/lib/python3.13/site-packages/rdkit/VLib/Output.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/rddata.sql -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/BaseFeatures.fdef -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/DTDs -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Model.dtd -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Dataset.dtd -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/DTDs/validate.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Salts.txt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/FragmentDescriptors.csv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/SmartsLib -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/SmartsLib/RLewis_smarts.txt -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.chk -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Functional_Group_Hierarchy.txt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Pains -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Pains/test_data -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Pains/test_data/test_set3.txt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Pains/test_data/wehi_mols.csv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Pains/test_data/run_tests.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Pains/README.md -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Pains/wehi_pains.csv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/RDTests.sqlt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/NCI -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/NCI/first_5k.tpsa.csv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/NCI/first_5K.smi -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/NCI/first_200.tpsa.csv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/NCI/first_200.props.sdf -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/RDData.sqlt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Fonts -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Fonts/Telex-Regular.ttf -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Fonts/Amadeus.ttf -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Fonts/font_dumper.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Fonts/telex_font_license.txt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Fonts/amadeus_font_license.txt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Fonts/roboto_regular_license.txt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Data/Crippen.txt -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Code -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Code/EnhancedStereo.md -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_CorrMat.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_Correlation.csv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_CorrMat.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_Correlation.csv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_Correlation.csv -- 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: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_2_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/mol_metadata1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im6.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_6_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_33_im2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/mcs_example_4.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_36_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molA.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_1_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im5.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_30_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_34_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atrop_representation2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/mcs_example_5.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_28_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_17_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_20_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_2_im1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_8.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_labels_1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_10.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/ary_group.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_highlights_3.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_34_im2.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/pull_req1.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_8_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_29_im0.png -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/Overview.md -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/index.rst -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data/AmideBond.rxn -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data/solubility.test.sdf -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data/input.mol -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data/test_multi_colours.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data/MinimalFeatures.fdef -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data/README.md -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data/5ht3ligs.sdf -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Book/data/CrossLink.mol -- Installing: 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Notebooks/MolStandardize.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-Tests.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Notebooks/FingerprintGenerators.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-DummyCores.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-RingSubstitution.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GenericCores.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-example-lactam.ipynb -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib -- 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/build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/converted.smi -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/cdk2.sdf -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/sdf2smi.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/clustered_parse.tsv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/fastcluster.py -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/centroid.tsv -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib/NP_Score -- Installing: /build/reproducible-path/rdkit-202503.6/debian/tmp/usr/share/RDKit/Contrib/NP_Score/npscorer.py -- Installing: 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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 Possible precedence issue with control flow operator (return) at /usr/bin/dh_numpy3 line 57. Can't stat debian/librdkit1t64: No such file or directory at /usr/bin/dh_numpy3 line 85. dh_numpy3: warning: skipping binary package librdkit1t64 which does not depend on the NumPy C ABI Can't stat debian/librdkit-dev: No such file or directory at /usr/bin/dh_numpy3 line 85. dh_numpy3: warning: skipping binary package librdkit-dev which does not depend on the NumPy C ABI Can't stat debian/postgresql-18-rdkit: No such file or directory at /usr/bin/dh_numpy3 line 85. dh_numpy3: warning: 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:421: renaming rdBase.so to rdBase.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdGeometry.so to rdGeometry.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming cDataStructs.so to cDataStructs.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdAlignment.so to rdAlignment.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdAbbreviations.so to rdAbbreviations.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdCIPLabeler.so to rdCIPLabeler.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdChemReactions.so to rdChemReactions.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdChemicalFeatures.so to rdChemicalFeatures.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdCoordGen.so to rdCoordGen.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdDepictor.so to rdDepictor.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdDeprotect.so to rdDeprotect.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdDetermineBonds.so to rdDetermineBonds.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdDistGeom.so to rdDistGeom.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdEnumerateStereoisomers.so to rdEnumerateStereoisomers.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdFMCS.so to rdFMCS.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdFingerprintGenerator.so to rdFingerprintGenerator.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdForceFieldHelpers.so to rdForceFieldHelpers.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdGeneralizedSubstruct.so to rdGeneralizedSubstruct.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMHFPFingerprint.so to rdMHFPFingerprint.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMIF.so to rdMIF.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMMPA.so to rdMMPA.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolAlign.so to rdMolAlign.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolCatalog.so to rdMolCatalog.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolChemicalFeatures.so to rdMolChemicalFeatures.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolDescriptors.so to rdMolDescriptors.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolEnumerator.so to rdMolEnumerator.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolHash.so to rdMolHash.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolInterchange.so to rdMolInterchange.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolProcessing.so to rdMolProcessing.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolTransforms.so to rdMolTransforms.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdPartialCharges.so to rdPartialCharges.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdRGroupDecomposition.so to rdRGroupDecomposition.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdRascalMCES.so to rdRascalMCES.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdReducedGraphs.so to rdReducedGraphs.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdSLNParse.so to rdSLNParse.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdShapeHelpers.so to rdShapeHelpers.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdSubstructLibrary.so to rdSubstructLibrary.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdSynthonSpaceSearch.so to rdSynthonSpaceSearch.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdTautomerQuery.so to rdTautomerQuery.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdchem.so to rdchem.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdfiltercatalog.so to rdfiltercatalog.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdfragcatalog.so to rdfragcatalog.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdinchi.so to rdinchi.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdmolfiles.so to rdmolfiles.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdmolops.so to rdmolops.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdqueries.so to rdqueries.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdtrajectory.so to rdtrajectory.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolDraw2D.so to rdMolDraw2D.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdScaffoldNetwork.so to rdScaffoldNetwork.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMolStandardize.so to rdMolStandardize.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdMetricMatrixCalc.so to rdMetricMatrixCalc.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdForceField.so to rdForceField.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming DistGeom.so to DistGeom.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdSimDivPickers.so to rdSimDivPickers.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming Clustering.so to Clustering.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming cQuantize.so to cQuantize.cpython-313-aarch64-linux-gnu.so I: dh_python3 fs:421: renaming rdInfoTheory.so to rdInfoTheory.cpython-313-aarch64-linux-gnu.so dh_numpy3 -ppython3-rdkit Possible precedence issue with control flow operator (return) at /usr/bin/dh_numpy3 line 57. 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 anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/bzr.smi exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/cdk2.sdf exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/chiral.mol exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/input.mol exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/invalid.mol exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/s1p_chembldoc89753.txt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/solubility.test.sdf exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/solubility.train.sdf exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/data/test_multi_colours.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/exts/extapi.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/Cc1ccccc1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/DnaDoubleStrand.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molA.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molB.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molC.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molD.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molE.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molF.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molG.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/PeptideConversion.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_0_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_0_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_0_im2.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_13_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_13_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_15_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_15_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_17_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_17_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_19_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_1_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_1_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_1_im2.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_1_im3.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_20_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_20_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_21_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_21_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_21_im2.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_21_im3.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_21_im4.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_21_im5.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_22_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_22_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_23_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_23_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_28_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_28_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_29_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_2_im0.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_2_im1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/images/RDKitCB_30_im0.png exists in 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in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Node.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.DbMolSupply.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.DbPickleSupplier.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SDSupply.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmartsMolFilter.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmartsRemover.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesDupeFilter.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesOutput.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesSupply.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Output.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Supply.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Transform.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.VLib.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.rdBase.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.utils.cactvs.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.utils.chemutils.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.utils.fileutils.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.utils.listutils.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.utils.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book/source/rdkit.utils.spiral.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/An_overview_of_the_RDKit_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/Backwards_incompatible_changes_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/Getting_Started_with_RDKit_in_Python_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/Installation_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/Makefile exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/RDKit_cookbook_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/Supplementary_Text_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/The_RDKit_Book_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/The_RDKit_database_cartridge_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/conf.py exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/index.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/introduction_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_1.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_10.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_11.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_12.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_13.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_14.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_15.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_16.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_17.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_18.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_19.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_2.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_20.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_21.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_22.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_23.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_24.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_25.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_26.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_27.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_28.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_29.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_3.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_30.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_31.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_32.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_33.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_34.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_35.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_36.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_37.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_38.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_39.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_4.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_40.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_41.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_42.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_43.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_44.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_45.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_46.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_47.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_48.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_49.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_5.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_50.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_51.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_52.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_53.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_54.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_55.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_56.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_57.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_58.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_59.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_6.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_60.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_61.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_62.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_7.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_8.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_9.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Book_jp/terminology_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/CIPLabeling.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/FragmentCatalogs.html exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.ai exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.jpg exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.ai exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.jpg exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/EnhancedStereo.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/SGroups.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/gsocGeneralFileReader.md exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_or_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_base.png exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_expand.png exists in debian/tmp but is not 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: 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 PyExc_IndexError used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyExc_KeyError used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyExc_RuntimeError used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries dpkg-shlibdeps: warning: symbol PyExc_ValueError used by debian/librdkit1t64/usr/lib/libRDKitRDBoost.so.1.2025.03.6 found in none of the libraries 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 _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_Format 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 PyUnicode_FromStringAndSize 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) dpkg-shlibdeps: warning: debian/postgresql-18-rdkit/usr/lib/postgresql/18/lib/rdkit.so contains an unresolvable reference to symbol CurrentMemoryContext: it's probably a plugin dpkg-shlibdeps: warning: 24 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: 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 dpkg-gencontrol: warning: Provides field of package python3-rdkit: substitution variable ${python3:Provides} used, but is not defined dh_md5sums -a -O--buildsystem=cmake dh_builddeb -a -O--buildsystem=cmake dpkg-deb: building package 'python3-rdkit' in '../python3-rdkit_202503.6-2_arm64.deb'. dpkg-deb: building package 'librdkit1t64' in '../librdkit1t64_202503.6-2_arm64.deb'. dpkg-deb: building package 'librdkit-dev' in '../librdkit-dev_202503.6-2_arm64.deb'. dpkg-deb: building package 'postgresql-18-rdkit-dbgsym' in '../postgresql-18-rdkit-dbgsym_202503.6-2_arm64.deb'. dpkg-deb: building package 'postgresql-18-rdkit' in '../postgresql-18-rdkit_202503.6-2_arm64.deb'. dpkg-deb: building package 'python3-rdkit-dbgsym' in '../python3-rdkit-dbgsym_202503.6-2_arm64.deb'. dpkg-deb: building package 'librdkit1t64-dbgsym' in '../librdkit1t64-dbgsym_202503.6-2_arm64.deb'. dpkg-genbuildinfo --build=any -O../rdkit_202503.6-2_arm64.buildinfo dpkg-genchanges --build=any -O../rdkit_202503.6-2_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 2025-11-19T20:43:39Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Wed, 19 Nov 2025 20:43:42 +0000 | +------------------------------------------------------------------------------+ rdkit_202503.6-2_arm64.changes: ------------------------------- Format: 1.8 Date: Wed, 08 Oct 2025 23:54:08 +0200 Source: rdkit Binary: librdkit-dev librdkit1t64 librdkit1t64-dbgsym postgresql-18-rdkit postgresql-18-rdkit-dbgsym python3-rdkit python3-rdkit-dbgsym Architecture: arm64 Version: 202503.6-2 Distribution: unstable Urgency: medium Maintainer: Debichem Team Changed-By: Christoph Berg 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 Changes: rdkit (202503.6-2) unstable; urgency=medium . [ Andrius Merkys ] * Patch unusual Python3 shebangs. * Resolve lintian's privacy-breach-generic via patch. . [ Christoph Berg ] * Upload for PostgreSQL 18. * Add ${postgresql:Breaks}. * debian/tests: Depend on postgresql-common-dev instead of 'make'. Checksums-Sha1: f92058ccdc5d700af262b39a98d49ddc648fb0ce 494436 librdkit-dev_202503.6-2_arm64.deb cafc75042394396b114969d3b1de1469ab3f0526 123774828 librdkit1t64-dbgsym_202503.6-2_arm64.deb 3216cd36b43215786a9eae97acadc94361923ac3 5237688 librdkit1t64_202503.6-2_arm64.deb c250b299f91c194fed6981c151e9bc277de5627d 1161060 postgresql-18-rdkit-dbgsym_202503.6-2_arm64.deb 0b287960e85db05f2affc11f038e7f034b90e8c5 249460 postgresql-18-rdkit_202503.6-2_arm64.deb 60252c7b392eddd6b11cd731150f5604265b5157 62639792 python3-rdkit-dbgsym_202503.6-2_arm64.deb 722b78c220fbac1ba6a134090f7cc9c579a70048 4390084 python3-rdkit_202503.6-2_arm64.deb 331181346d0e69b205e645ab1b87806ca9a1a140 17783 rdkit_202503.6-2_arm64.buildinfo Checksums-Sha256: 3a16d1ee252447bf8fc64f0d1a37d10a356173b7659ce72a26b75c2a119f1196 494436 librdkit-dev_202503.6-2_arm64.deb e8874da67ff7c66b91252b02ef5a4389c576aafacb86e3b7869adda8bc5a6ab0 123774828 librdkit1t64-dbgsym_202503.6-2_arm64.deb 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debug optional postgresql-18-rdkit-dbgsym_202503.6-2_arm64.deb ecc50d2acfa1825ac8c4f21b0638172f 249460 database optional postgresql-18-rdkit_202503.6-2_arm64.deb 642a8dae44e457113c30c15ef0ff3504 62639792 debug optional python3-rdkit-dbgsym_202503.6-2_arm64.deb ac1add8c1dab8195adcc3e991e540778 4390084 python optional python3-rdkit_202503.6-2_arm64.deb be52e2ba9be9f7ef721afef654287b90 17783 science optional rdkit_202503.6-2_arm64.buildinfo +------------------------------------------------------------------------------+ | Buildinfo Wed, 19 Nov 2025 20:43:43 +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: 202503.6-2 Checksums-Md5: 0aa9faeb5d9278b1d92d7c132396f7e1 494436 librdkit-dev_202503.6-2_arm64.deb 73c45be65c574fb14e79d868425201cf 123774828 librdkit1t64-dbgsym_202503.6-2_arm64.deb 1b9d69baabce503c76b89fdd11357ec4 5237688 librdkit1t64_202503.6-2_arm64.deb dc4ed25993290847afad9fca548e6aa8 1161060 postgresql-18-rdkit-dbgsym_202503.6-2_arm64.deb ecc50d2acfa1825ac8c4f21b0638172f 249460 postgresql-18-rdkit_202503.6-2_arm64.deb 642a8dae44e457113c30c15ef0ff3504 62639792 python3-rdkit-dbgsym_202503.6-2_arm64.deb ac1add8c1dab8195adcc3e991e540778 4390084 python3-rdkit_202503.6-2_arm64.deb Checksums-Sha1: f92058ccdc5d700af262b39a98d49ddc648fb0ce 494436 librdkit-dev_202503.6-2_arm64.deb cafc75042394396b114969d3b1de1469ab3f0526 123774828 librdkit1t64-dbgsym_202503.6-2_arm64.deb 3216cd36b43215786a9eae97acadc94361923ac3 5237688 librdkit1t64_202503.6-2_arm64.deb c250b299f91c194fed6981c151e9bc277de5627d 1161060 postgresql-18-rdkit-dbgsym_202503.6-2_arm64.deb 0b287960e85db05f2affc11f038e7f034b90e8c5 249460 postgresql-18-rdkit_202503.6-2_arm64.deb 60252c7b392eddd6b11cd731150f5604265b5157 62639792 python3-rdkit-dbgsym_202503.6-2_arm64.deb 722b78c220fbac1ba6a134090f7cc9c579a70048 4390084 python3-rdkit_202503.6-2_arm64.deb Checksums-Sha256: 3a16d1ee252447bf8fc64f0d1a37d10a356173b7659ce72a26b75c2a119f1196 494436 librdkit-dev_202503.6-2_arm64.deb e8874da67ff7c66b91252b02ef5a4389c576aafacb86e3b7869adda8bc5a6ab0 123774828 librdkit1t64-dbgsym_202503.6-2_arm64.deb 9d8d17040f505b85992785ac222167df4b06970e0c5375e39429cb7b1bcc2a3d 5237688 librdkit1t64_202503.6-2_arm64.deb 3f3ea9a1b11d9e427e8897de00ef98a9efd782d1fd77e8729475d2549bd63ccc 1161060 postgresql-18-rdkit-dbgsym_202503.6-2_arm64.deb e56384b1af660071f2836f310ca2130833505b2b63b5389511cc7883b3267dfc 249460 postgresql-18-rdkit_202503.6-2_arm64.deb c389db317d9efe8d88a32b1ad509d533ee3a6b2a12e5ca79dd01d73cf6850b45 62639792 python3-rdkit-dbgsym_202503.6-2_arm64.deb 0264ee26109f5575aeae525dab52e6a39aff03785d8cf6b5529b475fc1122c7c 4390084 python3-rdkit_202503.6-2_arm64.deb Build-Origin: Debian Build-Architecture: arm64 Build-Date: Wed, 19 Nov 2025 20:43:37 +0000 Build-Path: /build/reproducible-path/rdkit-202503.6 Installed-Build-Depends: adduser (= 3.153), architecture-properties (= 0.2.6), autoconf (= 2.72-3.1), automake (= 1:1.17-4), autopoint (= 0.23.1-2), autotools-dev (= 20240727.1), base-files (= 14), base-passwd (= 3.6.7), bash (= 5.3-1), binutils (= 2.45-7), binutils-aarch64-linux-gnu (= 2.45-7), binutils-common (= 2.45-7), bison (= 2:3.8.2+dfsg-1+b2), bsdextrautils (= 2.41.2-3), build-essential (= 12.12), bzip2 (= 1.0.8-6), ca-certificates (= 20250419), catch2 (= 3.7.1-0.6), clang-19 (= 1:19.1.7-7), cmake (= 4.1.1+really3.31.6-2), cmake-data (= 4.1.1+really3.31.6-2), coreutils (= 9.7-3), cpp (= 4:15.2.0-4), cpp-15 (= 15.2.0-4), cpp-15-aarch64-linux-gnu (= 15.2.0-4), cpp-aarch64-linux-gnu (= 4:15.2.0-4), dash (= 0.5.12-12), debconf (= 1.5.91), debhelper (= 13.28), debianutils (= 5.23.2), dh-autoreconf (= 21), dh-python (= 6.20250414), dh-strip-nondeterminism (= 1.15.0-1), diffutils (= 1:3.10-4), docutils-common (= 0.21.2+dfsg-2), doxygen (= 1.9.8+ds-2.1), dpkg (= 1.22.21), dpkg-dev (= 1.22.21), dwz (= 0.16-2), file (= 1:5.46-5), findutils (= 4.10.0-3), flex (= 2.6.4-8.2+b4), fontconfig (= 2.15.0-2.4), fontconfig-config (= 2.15.0-2.4), 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 (= 15.2.0-4), g++-15-aarch64-linux-gnu (= 15.2.0-4), g++-aarch64-linux-gnu (= 4:15.2.0-4), gcc (= 4:15.2.0-4), gcc-14-base (= 14.3.0-8), gcc-15 (= 15.2.0-4), gcc-15-aarch64-linux-gnu (= 15.2.0-4), gcc-15-base (= 15.2.0-4), gcc-aarch64-linux-gnu (= 4:15.2.0-4), gettext (= 0.23.1-2+b1), gettext-base (= 0.23.1-2+b1), girepository-tools (= 2.84.4-3), grep (= 3.12-1), groff-base (= 1.23.0-9), gzip (= 1.13-1), hicolor-icon-theme (= 0.18-2), hostname (= 3.25), icu-devtools (= 76.1-4), imagemagick (= 8:7.1.2.3+dfsg1-1), imagemagick-7-common (= 8:7.1.2.3+dfsg1-1), imagemagick-7.q16 (= 8:7.1.2.3+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 (= 3.13.1-1), libapache-pom-java (= 33-2), libarchive-zip-perl (= 1.68-1), libarchive13t64 (= 3.7.4-4+b1), libasan8 (= 15.2.0-4), libatomic1 (= 15.2.0-4), libattr1 (= 1:2.5.2-3), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1), libavif16 (= 1.3.0-1+b1), libbinutils (= 2.45-7), libblas3 (= 3.12.1-7), libblkid-dev (= 2.41.2-3), libblkid1 (= 2.41.2-3), libboost-atomic1.83-dev (= 1.83.0-5), libboost-atomic1.83.0 (= 1.83.0-5), libboost-chrono1.83-dev (= 1.83.0-5), libboost-chrono1.83.0t64 (= 1.83.0-5), libboost-date-time1.83-dev (= 1.83.0-5), libboost-date-time1.83.0 (= 1.83.0-5), libboost-dev (= 1.83.0.2+b2), libboost-iostreams-dev (= 1.83.0.2+b2), libboost-iostreams1.83-dev (= 1.83.0-5), libboost-iostreams1.83.0 (= 1.83.0-5), libboost-numpy-dev (= 1.83.0.2+b2), libboost-numpy1.83-dev (= 1.83.0-5), libboost-numpy1.83.0 (= 1.83.0-5), libboost-program-options-dev (= 1.83.0.2+b2), libboost-program-options1.83-dev (= 1.83.0-5), libboost-program-options1.83.0 (= 1.83.0-5), libboost-python-dev (= 1.83.0.2+b2), libboost-python1.83-dev (= 1.83.0-5), libboost-python1.83.0 (= 1.83.0-5), libboost-regex-dev (= 1.83.0.2+b2), libboost-regex1.83-dev (= 1.83.0-5), libboost-regex1.83.0 (= 1.83.0-5), libboost-serialization1.83-dev (= 1.83.0-5), libboost-serialization1.83.0 (= 1.83.0-5), libboost-system-dev (= 1.83.0.2+b2), libboost-system1.83-dev (= 1.83.0-5), libboost-system1.83.0 (= 1.83.0-5), libboost-thread-dev (= 1.83.0.2+b2), libboost-thread1.83-dev (= 1.83.0-5), libboost-thread1.83.0 (= 1.83.0-5), libboost1.83-dev (= 1.83.0-5), libbrotli-dev (= 1.1.0-2+b7), libbrotli1 (= 1.1.0-2+b7), libbsd0 (= 0.12.2-2), libbz2-1.0 (= 1.0.8-6), libbz2-dev (= 1.0.8-6), libc-bin (= 2.41-12), libc-dev-bin (= 2.41-12), libc6 (= 2.41-12), libc6-dev (= 2.41-12), libcairo-gobject2 (= 1.18.4-1+b1), libcairo-script-interpreter2 (= 1.18.4-1+b1), libcairo2 (= 1.18.4-1+b1), libcairo2-dev (= 1.18.4-1+b1), libcap-ng0 (= 0.8.5-4+b1), libcap2 (= 1:2.75-10+b1), libcatch2-dev (= 3.7.1-0.6), libcc1-0 (= 15.2.0-4), libclang-common-19-dev (= 1:19.1.7-7), libclang-cpp19 (= 1:19.1.7-7), libclang1-19 (= 1:19.1.7-7), libcom-err2 (= 1.47.2-3+b3), libcommons-logging-java (= 1.3.0-2), libcommons-parent-java (= 56-1), libcoordgen-dev (= 3.0.2-3), libcoordgen3 (= 3.0.2-3), libcrypt-dev (= 1:4.4.38-1), libcrypt1 (= 1:4.4.38-1), libctf-nobfd0 (= 2.45-7), libctf0 (= 2.45-7), libcurl4t64 (= 8.16.0-4), libdatrie1 (= 0.2.13-4), libdav1d7 (= 1.5.1-1), libdb5.3t64 (= 5.3.28+dfsg2-10), libde265-0 (= 1.0.16-1), libdebconfclient0 (= 0.280), libdebhelper-perl (= 13.28), libdeflate0 (= 1.23-2), libdpkg-perl (= 1.22.21), libedit2 (= 3.1-20250104-1), libeigen3-dev (= 3.4.0-5), libelf1t64 (= 0.193-3), libexpat1 (= 2.7.3-1), libexpat1-dev (= 2.7.3-1), libffi-dev (= 3.5.2-2), libffi8 (= 3.5.2-2), 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 (= 2.15.0-2.4), libfontconfig1 (= 2.15.0-2.4), libfontenc1 (= 1:1.1.8-1+b2), libfreetype-dev (= 2.13.3+dfsg-1), libfreetype6 (= 2.13.3+dfsg-1), libfribidi0 (= 1.0.16-3), libgav1-1 (= 0.19.0-3+b1), libgc1 (= 1:8.2.8-1), libgcc-14-dev (= 14.3.0-8), libgcc-15-dev (= 15.2.0-4), libgcc-s1 (= 15.2.0-4), libgdbm-compat4t64 (= 1.26-1), libgdbm6t64 (= 1.26-1), libgdk-pixbuf-2.0-0 (= 2.44.3+dfsg-3), libgdk-pixbuf2.0-common (= 2.44.3+dfsg-3), libgfortran5 (= 15.2.0-4), libgio-2.0-dev (= 2.84.4-3), libgio-2.0-dev-bin (= 2.84.4-3), libgirepository-2.0-0 (= 2.84.4-3), libglib2.0-0t64 (= 2.84.4-3), libglib2.0-bin (= 2.84.4-3), libglib2.0-data (= 2.84.4-3), libglib2.0-dev (= 2.84.4-3), libglib2.0-dev-bin (= 2.84.4-3), libgmp10 (= 2:6.3.0+dfsg-5), libgnutls30t64 (= 3.8.10-2), libgomp1 (= 15.2.0-4), libgprofng0 (= 2.45-7), libgraphite2-3 (= 1.3.14-11), libgssapi-krb5-2 (= 1.21.3-5), libharfbuzz0b (= 12.1.0-1), libheif-plugin-dav1d (= 1.20.2-2+b1), libheif-plugin-libde265 (= 1.20.2-2+b1), libheif1 (= 1.20.2-2+b1), libhogweed6t64 (= 3.10.2-1), libhwasan0 (= 15.2.0-4), 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 (= 4.4.0-3), 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 (= 20231003.0-2), libisl23 (= 0.27-1), libitm1 (= 15.2.0-4), libjansson4 (= 2.14-2+b3), libjbig0 (= 2.1-6.1+b2), libjpeg62-turbo (= 1:2.1.5-4), libjs-sphinxdoc (= 8.2.3-7), libjson-perl (= 4.10000-1), libjsoncpp26 (= 1.9.6-4), libk5crypto3 (= 1.21.3-5), libkeyutils1 (= 1.6.3-6), libkpathsea6 (= 2025.20250727.75242+ds-4), libkrb5-3 (= 1.21.3-5), libkrb5support0 (= 1.21.3-5), liblapack3 (= 3.12.1-7), liblcms2-2 (= 2.16-2), libldap2 (= 2.6.10+dfsg-1), liblerc4 (= 4.0.0+ds-5), libllvm19 (= 1:19.1.7-7), liblqr-1-0 (= 0.4.2-2.1+b2), liblsan0 (= 15.2.0-4), libltdl7 (= 2.5.4-5), liblua5.4-0 (= 5.4.8-1), liblz4-1 (= 1.10.0-4), liblzma-dev (= 5.8.1-2), liblzma5 (= 5.8.1-2), 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 (= 8:7.1.2.3+dfsg1-1), libmagickwand-7.q16-10 (= 8:7.1.2.3+dfsg1-1), libmd0 (= 1.1.0-2+b1), libmount-dev (= 2.41.2-3), libmount1 (= 2.41.2-3), libmpc3 (= 1.3.1-2), libmpfi0 (= 1.5.4+ds-4), libmpfr6 (= 4.2.2-2), libncurses-dev (= 6.5+20250216-2), libncurses6 (= 6.5+20250216-2), libncursesw6 (= 6.5+20250216-2), 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 (= 15.2.0-4), libobjc4 (= 15.2.0-4), libopenjp2-7 (= 2.5.3-2.1), libp11-kit0 (= 0.25.9-2), 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 (= 1.56.3-2), libpangocairo-1.0-0 (= 1.56.3-2), libpangoft2-1.0-0 (= 1.56.3-2), libpaper-utils (= 2.2.5-0.3+b2), libpaper2 (= 2.2.5-0.3+b2), 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 (= 5.40.1-6), libpfm4 (= 4.13.0+git106-g3e4031b-1), libpipeline1 (= 1.5.8-1), libpixman-1-0 (= 0.46.4-1), libpixman-1-dev (= 0.46.4-1), libpkgconf3 (= 1.8.1-4), libpng-dev (= 1.6.50-1), libpng16-16t64 (= 1.6.50-1), libpotrace0 (= 1.16-2+b2), libpq-dev (= 18.0-1), libpq5 (= 18.0-1), libproc2-0 (= 2:4.0.4-9), libpsl5t64 (= 0.21.2-1.1+b1), libptexenc1 (= 2025.20250727.75242+ds-4), libpython3-dev (= 3.13.7-1), libpython3-stdlib (= 3.13.7-1), libpython3.13 (= 3.13.7-1), libpython3.13-dev (= 3.13.7-1), libpython3.13-minimal (= 3.13.7-1), libpython3.13-stdlib (= 3.13.7-1), libraqm0 (= 0.10.3-1), librav1e0.8 (= 0.8.1-5), libraw23t64 (= 0.21.4-2), libreadline8t64 (= 8.3-3), librhash1 (= 1.4.6-1), librsvg2-2 (= 2.60.0+dfsg-1+b1), librsvg2-bin (= 2.60.0+dfsg-1+b1), 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), libselinux1 (= 3.8.1-1), libselinux1-dev (= 3.8.1-1), libsemanage-common (= 3.8.1-1), libsemanage2 (= 3.8.1-1), libsepol-dev (= 3.8.1-1), libsepol2 (= 3.8.1-1), libsframe2 (= 2.45-7), libsharpyuv0 (= 1.5.0-0.1), libsm-dev (= 2:1.2.6-1), libsm6 (= 2:1.2.6-1), libsmartcols1 (= 2.41.2-3), 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++-14-dev (= 14.3.0-8), libstdc++-15-dev (= 15.2.0-4), libstdc++6 (= 15.2.0-4), libsvtav1enc2 (= 2.3.0+dfsg-1), libsynctex2 (= 2025.20250727.75242+ds-4), libsysprof-capture-4-dev (= 49.0-1), libsystemd0 (= 258-1), libtasn1-6 (= 4.20.0-2), libteckit0 (= 2.5.12+ds1-1+b1), libtexlua53-5 (= 2025.20250727.75242+ds-4), libtext-charwidth-perl (= 0.04-11+b4), libtext-wrapi18n-perl (= 0.06-10), libthai-data (= 0.1.29-2), libthai0 (= 0.1.29-2+b1), libtiff6 (= 4.7.1-1), libtinfo6 (= 6.5+20250216-2), libtool (= 2.5.4-5), libtsan2 (= 15.2.0-4), libubsan1 (= 15.2.0-4), libuchardet0 (= 0.0.8-2), libudev1 (= 258-1), libunistring5 (= 1.3-2), libuuid1 (= 2.41.2-3), 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 (= 1:1.1.5-1), libxdmcp6 (= 1:1.1.5-1), libxext-dev (= 2:1.3.4-1+b3), libxext6 (= 2:1.3.4-1+b3), libxi6 (= 2:1.8.2-1), libxml2-16 (= 2.14.6+dfsg-0.1), libxml2-dev (= 2.14.6+dfsg-0.1), libxmu6 (= 2:1.1.3-3+b4), 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), libyuv0 (= 0.0.1919.20250919-1), libz3-4 (= 4.13.3-1), libz3-dev (= 4.13.3-1), libzstd1 (= 1.5.7+dfsg-2), libzzip-0-13t64 (= 0.13.78+dfsg.1-0.2), linux-libc-dev (= 6.16.11-1), llvm-19 (= 1:19.1.7-7), llvm-19-dev (= 1:19.1.7-7), llvm-19-linker-tools (= 1:19.1.7-7), llvm-19-runtime (= 1:19.1.7-7), llvm-19-tools (= 1:19.1.7-7), lmodern (= 2.005-1), login.defs (= 1:4.18.0-1), m4 (= 1.4.20-2), make (= 4.4.1-2), man-db (= 2.13.1-1), mawk (= 1.3.4.20250131-1), media-types (= 13.0.0), native-architecture (= 0.2.6), ncurses-base (= 6.5+20250216-2), ncurses-bin (= 6.5+20250216-2), 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 (= 1:4.18.0-1), patch (= 2.8-2), perl (= 5.40.1-6), perl-base (= 5.40.1-6), perl-modules-5.40 (= 5.40.1-6), pkgconf (= 1.8.1-4), pkgconf-bin (= 1.8.1-4), po-debconf (= 1.0.21+nmu1), postgresql-client-18 (= 18.0-1), postgresql-client-common (= 284), postgresql-common (= 284), postgresql-common-dev (= 284), postgresql-server-dev-18 (= 18.0-1), postgresql-server-dev-all (= 284), preview-latex-style (= 13.2-1.1), procps (= 2:4.0.4-9), python-babel-localedata (= 2.17.0-1), python3 (= 3.13.7-1), python3-alabaster (= 0.7.16-0.1), python3-babel (= 2.17.0-1), python3-certifi (= 2025.1.31+ds-1), python3-chardet (= 5.2.0+dfsg-2), python3-charset-normalizer (= 3.4.3-1), python3-commonmark (= 0.9.1-8), python3-dateutil (= 2.9.0-4), python3-defusedxml (= 0.7.1-3), python3-dev (= 3.13.7-1), python3-docutils (= 0.21.2+dfsg-2), python3-greenlet (= 3.1.0-1+b2), python3-idna (= 3.10-1), python3-imagesize (= 1.4.1-1), python3-iniconfig (= 1.1.1-2), python3-jinja2 (= 3.1.6-1), python3-linkify-it (= 2.0.3-1), python3-markdown-it (= 3.0.0-3), python3-markupsafe (= 3.0.2-2), python3-mdit-py-plugins (= 0.5.0-1), python3-mdurl (= 0.1.2-1), python3-minimal (= 3.13.7-1), python3-myst-parser (= 4.0.1-1), python3-numpy (= 1:2.2.4+ds-1.2), python3-numpy-dev (= 1:2.2.4+ds-1.2), python3-packaging (= 25.0-1), python3-pandas (= 2.3.2+dfsg-2), python3-pandas-lib (= 2.3.2+dfsg-2), python3-pil (= 11.3.0-1), python3-pluggy (= 1.6.0-1), python3-pygments (= 2.18.0+dfsg-2), python3-pytest (= 8.4.2-1), python3-pytz (= 2025.2-4), python3-recommonmark (= 0.7.1+ds-8), python3-requests (= 2.32.5+dfsg-1), python3-roman (= 5.1-1), python3-roman-numerals (= 3.1.0-2), python3-snowballstemmer (= 3.0.1-1), python3-sphinx (= 8.2.3-7), python3-sqlalchemy (= 2.0.43+ds1-1), python3-typing-extensions (= 4.15.0-1), python3-uc-micro (= 1.0.3-1), python3-urllib3 (= 2.5.0-1), python3-yaml (= 6.0.2-2), python3.13 (= 3.13.7-1), python3.13-dev (= 3.13.7-1), python3.13-minimal (= 3.13.7-1), 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 (= 8.2.3-7), ssl-cert (= 1.1.3), sysvinit-utils (= 3.14-4), t1utils (= 1.41-4+b1), tar (= 1.35+dfsg-3.1), tex-common (= 6.19), tex-gyre (= 20180621-6), texlive-base (= 2025.20250927-3), texlive-binaries (= 2025.20250727.75242+ds-4), texlive-fonts-recommended (= 2025.20250927-3), texlive-latex-base (= 2025.20250927-3), texlive-latex-extra (= 2025.20250927-3), texlive-latex-recommended (= 2025.20250927-3), texlive-luatex (= 2025.20250927-3), texlive-pictures (= 2025.20250927-3), tzdata (= 2025b-5), ucf (= 3.0052), util-linux (= 2.41.2-3), uuid-dev (= 2.41.2-3), x11-common (= 1:7.7+25), 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 (= 5.8.1-2), zlib1g (= 1:1.3.dfsg+really1.3.1-1+b1), zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1+b1) Environment: DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" SOURCE_DATE_EPOCH="1759960448" +------------------------------------------------------------------------------+ | Package contents Wed, 19 Nov 2025 20:43:43 +0000 | +------------------------------------------------------------------------------+ librdkit-dev_202503.6-2_arm64.deb --------------------------------- new Debian package, version 2.0. size 494436 bytes: control archive=10916 bytes. 1505 bytes, 37 lines control 32095 bytes, 376 lines md5sums Package: librdkit-dev Source: rdkit Version: 202503.6-2 Architecture: arm64 Maintainer: Debichem Team Installed-Size: 2785 Depends: librdkit1t64 (= 202503.6-2) 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 2025-10-08 21:54 ./ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/include/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/include/rdkit/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./usr/include/rdkit/DataManip/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 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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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./usr/include/rdkit/GraphMol/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./usr/include/rdkit/GraphMol/ChemReactions/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./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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2025-08-29 13:10 ./usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./usr/include/rdkit/GraphMol/MolStandardize/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./usr/include/rdkit/Numerics/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./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 2025-10-08 21:54 ./usr/include/rdkit/Numerics/EigenSolvers/ -rw-r--r-- root/root 2106 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21:54 ./usr/lib/cmake/rdkitpython/rdkitpython-config.cmake -rw-r--r-- root/root 865 2025-10-08 21:54 ./usr/lib/cmake/rdkitpython/rdkitpython-targets-none.cmake -rw-r--r-- root/root 5682 2025-10-08 21:54 ./usr/lib/cmake/rdkitpython/rdkitpython-targets.cmake lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitAbbreviations.so -> libRDKitAbbreviations.so.1 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitAlignment.so -> libRDKitAlignment.so.1 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitCIPLabeler.so -> libRDKitCIPLabeler.so.1 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitCatalogs.so -> libRDKitCatalogs.so.1 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitChemReactions.so -> libRDKitChemReactions.so.1 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitChemTransforms.so -> libRDKitChemTransforms.so.1 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitChemicalFeatures.so -> libRDKitChemicalFeatures.so.1 lrwxrwxrwx root/root 0 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librdkit1t64_202503.6-2_arm64.deb --------------------------------- new Debian package, version 2.0. size 5237688 bytes: control archive=3552 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: 202503.6-2 Architecture: arm64 Maintainer: Debichem Team Installed-Size: 25842 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 (<< 202503.6-2) Replaces: librdkit1 Provides: librdkit1 (= 202503.6-2) 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 2025-10-08 21:54 ./ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/ lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitAbbreviations.so.1 -> libRDKitAbbreviations.so.1.2025.03.6 -rw-r--r-- root/root 198880 2025-10-08 21:54 ./usr/lib/libRDKitAbbreviations.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitAlignment.so.1 -> libRDKitAlignment.so.1.2025.03.6 -rw-r--r-- root/root 67768 2025-10-08 21:54 ./usr/lib/libRDKitAlignment.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitCIPLabeler.so.1 -> libRDKitCIPLabeler.so.1.2025.03.6 -rw-r--r-- root/root 265120 2025-10-08 21:54 ./usr/lib/libRDKitCIPLabeler.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitCatalogs.so.1 -> libRDKitCatalogs.so.1.2025.03.6 -rw-r--r-- root/root 67528 2025-10-08 21:54 ./usr/lib/libRDKitCatalogs.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitChemReactions.so.1 -> libRDKitChemReactions.so.1.2025.03.6 -rw-r--r-- root/root 1182336 2025-10-08 21:54 ./usr/lib/libRDKitChemReactions.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitChemTransforms.so.1 -> libRDKitChemTransforms.so.1.2025.03.6 -rw-r--r-- root/root 461120 2025-10-08 21:54 ./usr/lib/libRDKitChemTransforms.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitChemicalFeatures.so.1 -> libRDKitChemicalFeatures.so.1.2025.03.6 -rw-r--r-- root/root 67688 2025-10-08 21:54 ./usr/lib/libRDKitChemicalFeatures.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitDataStructs.so.1 -> libRDKitDataStructs.so.1.2025.03.6 -rw-r--r-- root/root 329960 2025-10-08 21:54 ./usr/lib/libRDKitDataStructs.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitDepictor.so.1 -> libRDKitDepictor.so.1.2025.03.6 -rw-r--r-- root/root 461056 2025-10-08 21:54 ./usr/lib/libRDKitDepictor.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitDeprotect.so.1 -> libRDKitDeprotect.so.1.2025.03.6 -rw-r--r-- root/root 67776 2025-10-08 21:54 ./usr/lib/libRDKitDeprotect.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitDescriptors.so.1 -> libRDKitDescriptors.so.1.2025.03.6 -rw-r--r-- root/root 867000 2025-10-08 21:54 ./usr/lib/libRDKitDescriptors.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitDetermineBonds.so.1 -> libRDKitDetermineBonds.so.1.2025.03.6 -rw-r--r-- root/root 133304 2025-10-08 21:54 ./usr/lib/libRDKitDetermineBonds.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitDistGeomHelpers.so.1 -> libRDKitDistGeomHelpers.so.1.2025.03.6 -rw-r--r-- root/root 461000 2025-10-08 21:54 ./usr/lib/libRDKitDistGeomHelpers.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitDistGeometry.so.1 -> libRDKitDistGeometry.so.1.2025.03.6 -rw-r--r-- root/root 198840 2025-10-08 21:54 ./usr/lib/libRDKitDistGeometry.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitEigenSolvers.so.1 -> libRDKitEigenSolvers.so.1.2025.03.6 -rw-r--r-- root/root 67768 2025-10-08 21:54 ./usr/lib/libRDKitEigenSolvers.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitEnumerateStereoisomers.so.1 -> libRDKitEnumerateStereoisomers.so.1.2025.03.6 -rw-r--r-- root/root 133312 2025-10-08 21:54 ./usr/lib/libRDKitEnumerateStereoisomers.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitFMCS.so.1 -> libRDKitFMCS.so.1.2025.03.6 -rw-r--r-- root/root 329912 2025-10-08 21:54 ./usr/lib/libRDKitFMCS.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitFileParsers.so.1 -> libRDKitFileParsers.so.1.2025.03.6 -rw-r--r-- root/root 2299320 2025-10-08 21:54 ./usr/lib/libRDKitFileParsers.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitFilterCatalog.so.1 -> libRDKitFilterCatalog.so.1.2025.03.6 -rw-r--r-- root/root 1181952 2025-10-08 21:54 ./usr/lib/libRDKitFilterCatalog.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitFingerprints.so.1 -> libRDKitFingerprints.so.1.2025.03.6 -rw-r--r-- root/root 658656 2025-10-08 21:54 ./usr/lib/libRDKitFingerprints.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitForceField.so.1 -> libRDKitForceField.so.1.2025.03.6 -rw-r--r-- root/root 723136 2025-10-08 21:54 ./usr/lib/libRDKitForceField.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitForceFieldHelpers.so.1 -> libRDKitForceFieldHelpers.so.1.2025.03.6 -rw-r--r-- root/root 526544 2025-10-08 21:54 ./usr/lib/libRDKitForceFieldHelpers.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitFragCatalog.so.1 -> libRDKitFragCatalog.so.1.2025.03.6 -rw-r--r-- root/root 264384 2025-10-08 21:54 ./usr/lib/libRDKitFragCatalog.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitGeneralizedSubstruct.so.1 -> libRDKitGeneralizedSubstruct.so.1.2025.03.6 -rw-r--r-- root/root 330232 2025-10-08 21:54 ./usr/lib/libRDKitGeneralizedSubstruct.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitGenericGroups.so.1 -> libRDKitGenericGroups.so.1.2025.03.6 -rw-r--r-- root/root 198856 2025-10-08 21:54 ./usr/lib/libRDKitGenericGroups.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitGraphMol.so.1 -> libRDKitGraphMol.so.1.2025.03.6 -rw-r--r-- root/root 2296064 2025-10-08 21:54 ./usr/lib/libRDKitGraphMol.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitInfoTheory.so.1 -> libRDKitInfoTheory.so.1.2025.03.6 -rw-r--r-- root/root 67768 2025-10-08 21:54 ./usr/lib/libRDKitInfoTheory.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMMPA.so.1 -> libRDKitMMPA.so.1.2025.03.6 -rw-r--r-- root/root 133312 2025-10-08 21:54 ./usr/lib/libRDKitMMPA.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMarvinParser.so.1 -> libRDKitMarvinParser.so.1.2025.03.6 -rw-r--r-- root/root 723512 2025-10-08 21:54 ./usr/lib/libRDKitMarvinParser.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolAlign.so.1 -> libRDKitMolAlign.so.1.2025.03.6 -rw-r--r-- root/root 133336 2025-10-08 21:54 ./usr/lib/libRDKitMolAlign.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolCatalog.so.1 -> libRDKitMolCatalog.so.1.2025.03.6 -rw-r--r-- root/root 67768 2025-10-08 21:54 ./usr/lib/libRDKitMolCatalog.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolChemicalFeatures.so.1 -> libRDKitMolChemicalFeatures.so.1.2025.03.6 -rw-r--r-- root/root 198912 2025-10-08 21:54 ./usr/lib/libRDKitMolChemicalFeatures.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolDraw2D.so.1 -> libRDKitMolDraw2D.so.1.2025.03.6 -rw-r--r-- root/root 1182072 2025-10-08 21:54 ./usr/lib/libRDKitMolDraw2D.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolEnumerator.so.1 -> libRDKitMolEnumerator.so.1.2025.03.6 -rw-r--r-- root/root 395656 2025-10-08 21:54 ./usr/lib/libRDKitMolEnumerator.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolHash.so.1 -> libRDKitMolHash.so.1.2025.03.6 -rw-r--r-- root/root 133560 2025-10-08 21:54 ./usr/lib/libRDKitMolHash.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolInteractionFields.so.1 -> libRDKitMolInteractionFields.so.1.2025.03.6 -rw-r--r-- root/root 198856 2025-10-08 21:54 ./usr/lib/libRDKitMolInteractionFields.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolInterchange.so.1 -> libRDKitMolInterchange.so.1.2025.03.6 -rw-r--r-- root/root 526544 2025-10-08 21:54 ./usr/lib/libRDKitMolInterchange.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolProcessing.so.1 -> libRDKitMolProcessing.so.1.2025.03.6 -rw-r--r-- root/root 67872 2025-10-08 21:54 ./usr/lib/libRDKitMolProcessing.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolStandardize.so.1 -> libRDKitMolStandardize.so.1.2025.03.6 -rw-r--r-- root/root 1117480 2025-10-08 21:54 ./usr/lib/libRDKitMolStandardize.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitMolTransforms.so.1 -> libRDKitMolTransforms.so.1.2025.03.6 -rw-r--r-- root/root 133304 2025-10-08 21:54 ./usr/lib/libRDKitMolTransforms.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitO3AAlign.so.1 -> libRDKitO3AAlign.so.1.2025.03.6 -rw-r--r-- root/root 198856 2025-10-08 21:54 ./usr/lib/libRDKitO3AAlign.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitOptimizer.so.1 -> libRDKitOptimizer.so.1.2025.03.6 -rw-r--r-- root/root 67528 2025-10-08 21:54 ./usr/lib/libRDKitOptimizer.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitPartialCharges.so.1 -> libRDKitPartialCharges.so.1.2025.03.6 -rw-r--r-- 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root/root 133312 2025-10-08 21:54 ./usr/lib/libRDKitRDStreams.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitRGroupDecomposition.so.1 -> libRDKitRGroupDecomposition.so.1.2025.03.6 -rw-r--r-- root/root 987560 2025-10-08 21:54 ./usr/lib/libRDKitRGroupDecomposition.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitRascalMCES.so.1 -> libRDKitRascalMCES.so.1.2025.03.6 -rw-r--r-- root/root 527568 2025-10-08 21:54 ./usr/lib/libRDKitRascalMCES.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitReducedGraphs.so.1 -> libRDKitReducedGraphs.so.1.2025.03.6 -rw-r--r-- root/root 67808 2025-10-08 21:54 ./usr/lib/libRDKitReducedGraphs.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitSLNParse.so.1 -> libRDKitSLNParse.so.1.2025.03.6 -rw-r--r-- root/root 462040 2025-10-08 21:54 ./usr/lib/libRDKitSLNParse.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitScaffoldNetwork.so.1 -> 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./usr/lib/libRDKitTrajectory.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKitga.so.1 -> libRDKitga.so.1.2025.03.6 -rw-r--r-- root/root 67768 2025-10-08 21:54 ./usr/lib/libRDKitga.so.1.2025.03.6 lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/lib/libRDKithc.so.1 -> libRDKithc.so.1.2025.03.6 -rw-r--r-- root/root 67600 2025-10-08 21:54 ./usr/lib/libRDKithc.so.1.2025.03.6 drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/doc/librdkit1t64/ -rw-r--r-- root/root 4754 2025-10-08 21:54 ./usr/share/doc/librdkit1t64/changelog.Debian.gz -rw-r--r-- root/root 132390 2025-08-29 13:10 ./usr/share/doc/librdkit1t64/changelog.gz -rw-r--r-- root/root 64692 2025-10-08 21:53 ./usr/share/doc/librdkit1t64/copyright drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/lintian/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 495 2024-06-24 10:49 ./usr/share/lintian/overrides/librdkit1t64 postgresql-18-rdkit-dbgsym_202503.6-2_arm64.deb ----------------------------------------------- new Debian package, version 2.0. size 1161060 bytes: control archive=544 bytes. 393 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: postgresql-18-rdkit-dbgsym Source: rdkit Version: 202503.6-2 Auto-Built-Package: debug-symbols Architecture: arm64 Maintainer: Debichem Team Installed-Size: 1226 Depends: postgresql-18-rdkit (= 202503.6-2) Section: debug Priority: optional Description: debug symbols for postgresql-18-rdkit Build-Ids: d42c6e1a414f78471373917ccd0900e210f7d99b drwxr-xr-x root/root 0 2025-10-08 21:54 ./ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/debug/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/debug/.build-id/d4/ -rw-r--r-- root/root 1244632 2025-10-08 21:54 ./usr/lib/debug/.build-id/d4/2c6e1a414f78471373917ccd0900e210f7d99b.debug drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/doc/ lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/share/doc/postgresql-18-rdkit-dbgsym -> postgresql-18-rdkit postgresql-18-rdkit_202503.6-2_arm64.deb ---------------------------------------- new Debian package, version 2.0. size 249460 bytes: control archive=1584 bytes. 1581 bytes, 37 lines control 1481 bytes, 17 lines md5sums Package: postgresql-18-rdkit Source: rdkit Version: 202503.6-2 Architecture: arm64 Maintainer: Debichem Team Installed-Size: 669 Depends: libc6 (>= 2.17), libgcc-s1 (>= 3.0), librdkit1t64 (>= 202503.6), libstdc++6 (>= 13.1), postgresql-18 Section: database Priority: optional Homepage: http://www.rdkit.org Description: Cheminformatics and machine-learning software (PostgreSQL Cartridge) 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 PostgreSQL extension. drwxr-xr-x root/root 0 2025-10-08 21:54 ./ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/postgresql/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/postgresql/18/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/postgresql/18/lib/ -rw-r--r-- root/root 396600 2025-10-08 21:54 ./usr/lib/postgresql/18/lib/rdkit.so drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/doc/postgresql-18-rdkit/ -rw-r--r-- root/root 4756 2025-10-08 21:54 ./usr/share/doc/postgresql-18-rdkit/changelog.Debian.gz -rw-r--r-- root/root 132390 2025-08-29 13:10 ./usr/share/doc/postgresql-18-rdkit/changelog.gz -rw-r--r-- root/root 64692 2025-10-08 21:53 ./usr/share/doc/postgresql-18-rdkit/copyright drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/postgresql/ 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./usr/lib/debug/.build-id/ff/ec98aa036018c0b1d230583b9fe587b694accb.debug drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/debug/.dwz/aarch64-linux-gnu/ -rw-r--r-- root/root 1769768 2025-10-08 21:54 ./usr/lib/debug/.dwz/aarch64-linux-gnu/python3-rdkit.debug drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/doc/ lrwxrwxrwx root/root 0 2025-10-08 21:54 ./usr/share/doc/python3-rdkit-dbgsym -> python3-rdkit python3-rdkit_202503.6-2_arm64.deb ---------------------------------- new Debian package, version 2.0. size 4390084 bytes: control archive=11516 bytes. 1859 bytes, 36 lines control 40785 bytes, 406 lines md5sums 273 bytes, 12 lines * postinst #!/bin/sh 386 bytes, 12 lines * prerm #!/bin/sh Package: python3-rdkit Source: rdkit Version: 202503.6-2 Architecture: arm64 Maintainer: Debichem Team Installed-Size: 29707 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 2025-10-08 21:54 ./ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/python3/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/lib/python3/dist-packages/rdkit/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./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 2025-10-08 21:54 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-10-08 21:54 ./usr/share/doc/python3-rdkit/ -rw-r--r-- root/root 225 2023-09-20 14:24 ./usr/share/doc/python3-rdkit/TODO.Debian -rw-r--r-- root/root 4755 2025-10-08 21:54 ./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 2025-10-08 21:53 ./usr/share/doc/python3-rdkit/copyright +------------------------------------------------------------------------------+ | Post Build Wed, 19 Nov 2025 20:43:50 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Wed, 19 Nov 2025 20:43:50 +0000 | +------------------------------------------------------------------------------+ Purging /build/reproducible-path Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Wed, 19 Nov 2025 20:43:58 +0000 | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Type: any Build-Space: 6187060 Build-Time: 1816 Distribution: unstable Host Architecture: arm64 Install-Time: 5 Job: /srv/rebuilderd/tmp/rebuilderdqw0fyl/inputs/rdkit_202503.6-2.dsc Machine Architecture: arm64 Package: rdkit Package-Time: 1845 Source-Version: 202503.6-2 Space: 6187060 Status: successful Version: 202503.6-2 -------------------------------------------------------------------------------- Finished at 2025-11-19T20:43:39Z Build needed 00:30:45, 6187060k disk space build artifacts stored in /srv/rebuilderd/tmp/rebuilderdqw0fyl/out checking librdkit-dev_202503.6-2_arm64.deb: size... sha1... sha256... md5... all OK checking librdkit1t64-dbgsym_202503.6-2_arm64.deb: size differs for librdkit1t64-dbgsym_202503.6-2_arm64.deb